Wednesday 28 December 2011

Gay, Lesbian and Transgender

Transgender is sex exchange.

"It would be interesting to see if there is a genetic basis for this tendency to be gay.  ...  It would also be worthwhile to go into the experiences of such people in their formative years, whether this had anything to do with them turning out to be gay." - Dr Mohamed Tahir, Wed, Dec 28, 2011 at 10:06 AM

"A constant stream of media articles--several per year--assures us that there is a link between homosexuality and biological features. These articles mention genes, brain structure, hormone levels in the womb, ear characteristics, fingerprint styles, finger lengths, verbal skills...... and by the time you read this, some others may have appeared. The headlines imply that people are born with tendencies which infallibly will make them gay or lesbian, and that change of sexual orientation will be impossible." - Dr NE Whitehead, Twin studies

"The process of gender identification begins approximately between age two and a half and four. For boys, it is during this phase that they begin to move from their primary attachment with the mother to seeking out a deeper attachment with the father. For males, the relationship between a boy and his father is the initial source of developing a secure gender identity. It is through the father-son relationship that a boy discovers what he needs to know about being male, including who he is as a boy, how boys walk, how they talk, how they act, and so forth." - Dr Julie Harren, Homosexuality and gender identity

Reading list:
Gay gene
Biological correlates 
Twin studies 
Homosexuality and gender identity
"Born that way" resources
Richard O'Brien (I am 70% man)
Matlovich (an airman and a gay Vietnam veteran)

Radio programs:
Radio Interview With Dr. Stanton Jones -- September 27, 2007

Study Questions:

1) Definition of gay, lesbian and transgender.

2) Causes of gay, lesbian and transgender.

3) Gay, lesbian and transgender issues today.

4) Genetics underlying gay, lesbian and transgender.

5) Neuroanatomy of gay, lesbian and transgender humans.

6) Solutions for gay, lesbian and transgender problems.

Tuesday 27 December 2011

Health foods

With today's ageing population living longer and healthier, what do you think our elderly generation should eat to continue to live healthily till very old age? Can we possibly live past age 90 today?

Reading list:
Link 1 Colostrum
Link 2 Colostrum
Link 3 Colostrum
Link 4 Oxygen elements
Link 5 Acidophilus

Study Questions:

1) What is the concept of health food?

2) Are we eating healthily?

3) Why is eating health food important?

4) What can possibly happen if we do not eat health food?

5) What are examples of health foods?

6) What do health foods contain?

7) Are health foods beneficial?

8) What are the benefits of health foods?

9) Are health foods safe for human consumption?

10) Are health foods costly?

Monday 26 December 2011

Risk factors for cancer

Dr. Epstein cites the 2008-2009 Annual Report of the President’s Cancer Panel, released in April 2010, includes a “Summary of Environmental and Occupational Links with Cancer.” This report documents “strong” evidence on cancer risks from exposures to 15 individual or groups of carcinogens, such as talc powder, ethylene oxide, and dioxane. The report also documents “suspected” evidence from exposure to the larger range of risks from exposure to about 40 other individual or groups of carcinogens.

Source: World Wire

Further work:

1) Make a list of cancer risks  & carcinogens.

2) Make a questionnaire & distribute (print or online).

3) Collect feedback & analyse.

4) Report.

Problems with vaccines

Watch this YouTube video on Rotavirus vaccines.
Further Reading Tonka Report on Vaccines
Modern methods in vaccine production 

Study Questions:

1) What are vaccines?

2) How are vaccines produced? What is the starting material?

3) How safe are vaccines?

4) What are some fears about vaccines?

5) Why should we worry about contaminated vaccines?

A big question is: Why do people who take the rotavirus vaccine develop cancer? 
Here is a link to Health Maven which has a lot of issues to think about.

It should be known that vaccines were experimented by doctors in order to find a cure. In the early days (1800s to the turn of the 20th Century), experiments were done by doctors on their own, in their own "labs". These early "labs" were usually their own farms or homes. At home, either the attic or the basement was used.

One doctor who experimented on a possible vaccine for demam kuning? was Dr Fisher. Dr Fisher had experimented on animal brains for a cure for what he thought had killed his father. He experimented on the brain of various animals including monkeys and guinea pigs. The ethical issues are: Is it ethical to use the brain of animals for vaccine experimentation? How were the animal brains obtained? If the animals had to be sacrificed and the brains obtained for experimentation, how were the animals sacrificed? Were the animals subject to grievous pain before killing? How were the animals killed? Is killing animals for experimentation allowed? In the case of Dr Fisher, his animals were subjected to a lot of fear and pain. Even after Dr Fisher died and his home was sold, the spirits of the animals killed for his experiments still haunt his basement till the ghost busters team came and drove them out. Two questions still worry us: Why did Dr Fisher subject his experimental animals to a lot of pain? Did he use live brains and therefore the animals were alive when their skulls were cracked open? We don't know the truth of the nature of his experiments until someone can reveal that. Until then we still have to worry about use of animals for experiments. Vaccines maybe profitable but is it ethical to use animal brains for their experimentation?

Source: This story is taken from ASTRO Animal Planet, 26 December 2011, ~6pm.

Blog: Lifelong Learning About Islam

I operate the blog Lifelong Learning About Islam for USM under the Ibnu Sina Research Cluster. The Dean (Prof Abdul Aziz Baba) has asked me to proceed with this research and making collaborative links with other institutions and persons. There are many activities & collaborative projects which are possible under this Cluster.

Here are some of the possible things which students can try look into:

Halal Index
Halal food
Medicinal plants at Bukit Uhud
Islamic Medicine
Prophetic Medicine & Practices
Solat in medical practice & patient care
Wudhu' & Tayamum in patient care
Sufism
PERKIM
S&T in Islam
Green Energy
Al-Quran for patient care
As-Sunnah for patient care
Terminal care in Islam
Lectures in Islam
Cultural practices in Muslim families
Celebrations in Islam
Welfare of Muslim families
Islamic dress for males
Islamic dress for females

Guide for Students

This is a guide for Muslim students. The link is for another blog which I operate for USM under the Ibnu Sina Research Cluster by the title of Lifelong Learning About Islam.

Guide for students

Saturday 24 December 2011

Trans woman

This is an interesting web page I found on Christmas Eve: Trans woman

There are many more men who desire to be transformed into females. Who are needed to make them female? Many doctors. Is it ethical to change a man into a woman?

On what grounds is surgery allowed for a "male" to be surgically transformed into a "female".

What are the evidences you need, as a doctor, before you can decide to proceed with surgery for such transformation?

If at any time in the future, the transformed person would like to return to his prior state, what are his/her choices?

What advice can you possibly give to persons who are thinking of becoming trans women?

Is trans woman allowed in Islam? Can Muslim males become Muslim females?

Friday 16 December 2011

Is coughing a bad sign?

I will present to you a case I found today, quite an interesting case, from many aspects. Let's see...

An 80-year old Chinese grandfather complained of 2 weeks non-stop coughing. He was afebrile, tired and just laid in bed.

Upon probing, he said: "I'm not dead yet!" He continued coughing ... and tried to close his eyes to sleep.

A habit becomes noticeable at lunch time; when he ate, there was no coughing at all. After he completed his plate of rice, he started coughing again. What could his problem be? What are probable causes?

He went straight to bed after lunch, coughed and tried to sleep.

What could his problem be?

Upon further probing, he said: "I want to live another 10 years because all my ancestors died at about age 90!"

Well, well, well! So the patient has a wish ... and that is ... he wants to continue living another 10 years. But what do we do about his coughing? How do we relieve that and give him back his health, so he could live another 10 years?

Good thinking ... someone suggested to do a chest x-ray and see what that says.  Well, today's Friday, and a chest x-ray can only be done on Sunday. What can we do?

Further probing gave this information: His children had taken him to an expensive hospital where the doctor examined him and gave him medications worth RM50, but the coughing hasn't subsided.

My questions are: What did the doctor at the expensive hospital give him? Why did this patient expect to be cured when he paid an amount of money to the doctor? Does money paid mean a cure will be successful?

What are the dangers and consequences of leaving chronic cough untreated? What is the urgency in this type of cough that is refractile to prescribed medicines?

What do we do next? How do we proceed?

Thursday 15 December 2011

Choledocholithiasis

This is a good article everyone should read if they are more than 50 years old and feel bloated after food intake. This bloatedness can indicate that something is wrong somewhere within the biliary system, and often, there are ready-made gallstones in the gallbladder (they can't be found anywhere else anyway).

Now if I tell you that surgery to remove the gallstones is a quick-fix but a rather expensive affair, what is your immediate response if you were a patient suffering from gallstones? Of course you will want to try "everything else except surgery". What choices are there for the removal of gallstones?

You must have heard and read about "batu karang hempedu". Well, that's gallstones. The Malays call the gallstones "batu karang hempedu" as the "shiny colourful but ugly gall marbles" are bitter, comprising mainly of bitter substances in bile (don't tell me bile is sweet on exams or in viva!!).

We could use some imagination here. Think about how to remove marbles from a bag or from a tube. Well, if all the small marbles are inside the bag, we tie and sever the bag - simple? Yes. What if a marble is down somewhere in the biliary tree (which is a tube system anyway)? How do we get a marble out of a tube? Press it out? Press so hard till it pops out? Maybe an easier way is to tie the tube at 2 locations, immediately before and after the blockage. Then sever the bulge, maybe join the cut ends and get bile to flow freely again as before the blockage? Easier said than done. Surgical removal of the blocked tube is safer, I would think.

Anyway, try to read this article:
Ann Acad Med Singapore. 2010 Feb;39(2):136-42.

Laparoscopic common bile duct exploration: our first 50 cases.
Tan KK, Shelat VG, Liau KH, Chan CY, Ho CK.
Centre for Advanced Laparoscopic Surgery, Digestive Disease Centre, Section of Hepatobiliary Surgery, Department of General Surgery, Tan Tock Seng Hospital, Singapore.


Now that you have read the article, and I think you know a little bit more about gallstone removal, you may want to write your comments.

I have put this article up because we have put Professional exam questions on Cholecystectomy, but many students were not able to recall what that big word meant and therefore started answering as if I asked them to make a gallstone punch or something. So, look up that big word, and learn a few things from that article. The topic is important as many (if not all) who reach age 50 start developing problems relating to gallstones.

If you have to know a person's age, these are some clear signs (as I see it):
1) If a person holds/adjusts his/her book/paper at a distant in order to read it - the person is past age 40.
2) If a person says he/she needs her glasses to see something - the person is past age 50.
3) If a person says he/she feels stuffed or bloated after meals - the person is past age 50.
4) If a person says he/she has knee pain - the person is past age 50.
5) If a person says he/she didn't hear you well - the person is past age 50.

So, listen well when you are around people who are much older than you. This is the first lesson in medicine. Knowledge comes second and wisdom is third.

External link:
http://www.healthline.com/health/gallstones#Overview1

Respiratory Mechanisms in Acid-Base Homeostasis

Year 1 Medicine, Respiratory Block 2004/2005

Download PPT at:

Docstoc:
http://www.docstoc.com/docs/521224/Respiratory-Mechanisms-in-Acid-Base-Homeostasis

or

Scribd:
http://www.scribd.com/doc/49935334/Respiratory-Mechanisms-in-Acid-Base-Homeostasis-Yr1-MD-26Feb2005

Saturday 10 December 2011

dsDNA helix

This YouTube video shows you how to use zen magnetic beads to create a double-stranded DNA helix:

http://www.youtube.com/watch?v=NoKAgzHhnTg&feature=watch_response

Friday 9 December 2011

Lunar eclipse

Tomorrow is lunar eclipse. The moon will appear unusually big, bright red-soft turquoise in the new sky while the sun starts to rise.

Watch the YouTube video for explanation:
http://www.youtube.com/watch?v=MujkxjrMA2Y&feature=player_embedded

Sunday 4 December 2011

Romance de amour

The Romance of Love is a good guitar piece for relaxing the mind after studying for your exams. I've added other songs too.
Romance of Love
Love Words 
Hopeless Love 
Kiss Me More
Secret Garden 
Feelings
How Deep Is Your Love 
My Endless Love 
Don't You Forget About Me 
Indian music

You cannot access YouTube from inside campus. Download and play it then. If you listen to this type of music, then your mental capacity increases by itself. You don't have to be born a genius but if you learn to appreciate good music, then your brain thinks positive, and your surrounding turns good, and all good comes to you. Brainwise, you become smarter with time, and naturally. This concept of maturing well within a short time is most relevant when you are going through university life and taking difficult subjects. In my time, I listened to good music and managed to take courses for up to 5 majors, all at once. The brain is especially smart if you give it the right food, music, oxygen and rest.

I have touched on music. Now I will touch on good food. The best food for the brain is a good breakfast, a good snack, a good lunch, and a good dinner. You can add supper if you are still not asleep after 12 midnight.

What is good for breakfast? For me it is scrambled eggs, tomato, baked beans, wholemeal bread, milk, orange juice, and apple.

For snack I have chocolate-peanut-macademia cookie (about 6 inches in diameter) and milk. The nuts are good for the brain.

What is good for lunch? For me it is egg foo-yong, anything taufu, mixed vegetables, and soup. Maybe some fried rice. Sometimes I just have a large submarine BBQ beef sandwich (Google that recipe) and orange juice.

For dinner, I usually have either Spanish rice or burger.

So now you know the secrets of becoming a genious.

Unedited.

Saturday 26 November 2011

The Last Lecture

Dear students,

I want you to watch this YouTube video, The Last Lecture by Randy Pausch who had pancreatic cancer. He talks about his childhood dreams and human values. Please spend 76 minutes of your life to watch this wonderful video. It will teach you to respect yourself and others, in attaining your own dreams. You do not lose anything by thinking about others and doing things for others; you stand to benefit more by helping others. Those others you help, will come back next time with better things for you. You never know when a good thing comes until it's really gone for good.

Prof Faridah

Monday 21 November 2011

Red Yeast Rice

It is sometimes written as Red Rice Yeast.

From NPR:

WHAT IS IT?
A dietary supplement called red rice yeast, combined with fish oil and healthy lifestyle changes, can help reduce "bad" cholesterol as effectively as the statin drug Zocor, new research suggests.

FOR WHOM?
"This might be an alternative for some people," says cardiologist David Becker, lead author of the study, published Tuesday in the journal Mayo Clinic Proceedings.

AND WHOM?
It might work particularly for those patients who can't tolerate side effects such as muscle cramps that sometimes come with statins, a class of drugs used to lower cholesterol.

HOW TO TAKE IT?
The combination of supplements, a modified Mediterranean-type diet and moderate exercise has helped Barry Baron, 59, an engineer who lives outside Philadelphia. These days, he tries to get to the gym several times a week and takes extra walks in his neighborhood.


From Wikipedia:

WHAT IS IT?
Red yeast rice (simplified Chinese: 红曲米; traditional Chinese: 紅麴米); pinyin: hóng qú mǐ; literally "red yeast rice"), red fermented rice, red kojic rice, red koji rice, anka, or ang-kak, is a bright reddish purple fermented rice, which acquires its colour from being cultivated with the mold Monascus purpureus.

ADULTERATION OF FOOD
Due to the low cost of chemical dyes, some producers of red yeast rice have tried to modify their products with red dye #2 Sudan Red G.

HOW DO THE CHINESE USE IT?
In addition to its culinary use, red yeast rice is also used in traditional Chinese herbology and traditional Chinese medicine. Its use has been documented as far back as the Tang Dynasty in China in 800 AD. It is taken internally to invigorate the body, aid in digestion, and revitalize the blood. A more complete description is in the traditional Chinese pharmacopoeia, Ben Cao Gang Mu-Dan Shi Bu Yi, from the Ming Dynasty (1378-1644).

More at MedicineNet

Sunday 20 November 2011

Cruelty or Humane?

Please watch this YouTube video. There is no real execution but the text helps you to understand what the execution process is about. You can be the judge. Please do not watch it if you are scared.
Execution by lethal injection

Soaps and Baths

We need soap for bathing and cleaning ourselves. How do we make our own soap? How do we bathe?

History of soapmaking (sejarah pembuatan sabun)
DayBreak Lavender Farm

The Egyptians bathed regularly. How often did they bathe? Where did they bathe? Where did they get water to bathe?
Egyptian bath

The Romans don't bathe like we do - mandi simbah. How then did the Romans bathe? They used hot steaming pools with metal sheets or blocks built into their swimming pools. The most famous Roman bath is in the city of Bath in UK.
Roman bath

How did the Turkish bathe? They used Hamam.
Turkish hamam

Neroli Essential Oil

WHAT IS IT?
A virtual orange grove under glass, and preserved to this day, this elegant, formal and serene refuge became my inspiration as I blended a constellation of essential oils - Neroli, Bitter Orange, Mandarin Red, Rose Otto and Rose Geranium Zdravetz -- to recreate the incredible perfume of that 18th century crystal palace. Wildly popular in the 1920's, and rapidly being rediscovered today, this orange flower distillation is known as Neroli essential oil.

HOW IS IT OBTAINED?
Neroli Essential Oil - Citrus Aurantium -- Tunisia Steam Distilled ...

WHAT ARE ITS BENEFITS?
Health care practitioners and aromatherapists in Europe use it to bring quick relief for anxiety attacks and to treat chronic anxiety. Neroli essential oil is said to subdue stress and tension. Its hypnotic effect helps to induce sleep. It encourages confidence, courage, joy, peace and sensuality. Neroli essential oil can provide the strength and support to get through difficult or trying times.

Updates:
The web page that hosted Neroli essential oil is no longer there.
GenF20 Plus Review is about Human Growth Hormone (HGH).

Rhassoul

WHAT DOES IT MEAN?
The word "Rhassoul" comes from the Arabic word "ghassala" which means "to wash." 

WHERE DOES IT COME FROM?
From deep beneath the Atlas Mountains of Morocco, comes a remarkable all natural cosmetic Rhassoul Lava Clay, an ancient health and beauty remedy! Since 700 A.D., Rhassoul has been mined and used by the people of Morocco who place high value on The Rhassoul's beautifying, healthful, healing and pacifying effects. So, the endurance of treatments as old as the Rhassoul is proof that interest in such therapies is not merely a passing trend.

More at: DayBreak Lavender Farm


Monday 14 November 2011

iMedicalApps

If you have a smartphone, then you may want to try some of the mobile phone medical applications at iMedicalApps.


Source: http://www.imedicalapps.com/

Friday 11 November 2011

Tibb-i-Nabi

Application of Tibb-i-Nabi to Modern Medical Practice

Hakim Moinuddin Chishti (Robert Thomson, N.D.)
Medical practice in the United States is facing its most serious challenge in the past 100 years. While no medical system can be expected to have a monopoly on cures, to day allopathic medicine is facing an ever- growing number of unorthodox assaults, on top of the malpractice increase. And, these charges are being lodged despite the outstanding advances and cures which can be attributed to scientific medicine.

More at: http://www.imamreza.net/eng/imamreza.php?id=723

Download The Book of Sufi Healing by Shaykh Hakim Moinuddin Chishti at Scribd: http://scr.bi/8Z1VRp

Thursday 10 November 2011

First Cousin Marriages

Why are first cousin marriages not favoured?
What are the dangers of first cousin marriages?
Is it true that first cousin marriages result in higher chances of getting any genetic disease?
Is it true that first cousin marriages result in higher chances of getting heart disease?
Do first cousin marriages lend themselves to pediatric or adult heart disease?
Are first cousin marriages healthy or not?
How can we study first cousin marriages properly and see that they link/do not link to genetic diseases, especially heart disease, specifically congenital heart disease in babies/pediatrics and ischaemic heart disease in adults?

Sources:
Ann Pediatr Cardiol. 2011 Jul;4(2):111-6.
Assessing the influence of consanguinity on congenital heart disease.
Centre for Comparative Genomics, Murdoch University, and School of Medical Sciences, Edith Cowan University, Perth, Australia.

Community Genet. 2007;10(1):27-31.
Influence of consanguinity on the pattern of familial aggregation of congenital cardiovascular anomalies in an outpatient population: studies from the eastern province of Saudi Arabia.
Division of Pediatric Cardiology, Dhahran Health Center, Dhahran, Saudi Arabia. Seliem@email.chop.edu

Uses of Genetics

Genetics have more uses than just tracing lineages and pin-pointing carriers of diseases. Now they are used for many other purposes such as:
  1. To find genetic signatures
  2. To determine geographical proximity
  3. To determine linguistic affinity
  4. To study human migrations
It is interesting to note that genes have been studied in 3 populations of Pakistanis who speak 3 different languages - Burushos, Brahui (a Dravidian language) and Balti (Sino-Tibetan language).

Genes have been used to determine origins of people:
  1. Parsis --> Iran
  2. Hazaras --> Genghis Khan's army
  3. Negroid Makrani --> Africa
Genetic signatures have not been found for these origins: Tibetan, Syrian, Greek and Jewish.

The basis of genetics is to ask people where they came from - oral tradition about origins.

Source:
Am J Hum Genet. 2002 May;70(5):1107-24. Epub 2002 Mar 15.
Y-chromosomal DNA variation in Pakistan.
http://www.ncbi.nlm.nih.gov/pubmed/11898125

Thursday 3 November 2011

The truth, nothing but the truth

There is no democracy
There is no love
There are very rich people who live on the poor
There are poor nations whose people toil day and night to live
There are rich nations who ROB and STEAL from good humans
They are robbers and bandits
We live in the REAL world where looters wear masks
They run practically everything that has to do with LIFE
They control our lives with WEAPONS OF MASS DESTRUCTION
They control our lives with NATO
They control our lives via CIA and AL-JAZEERA
There is evil everywhere
Imperialism is here to stay to make us worst slaves
Our slaves masters want us to fight and kill
They want us to become animals while they themselves are BEASTS!!
Just look around you ... are there more rich people than poor ones?
Where did our country's wealth go?
Who STOLE all our wealth?
The IMPERIALS, the IMPERIALISTS
Who are the IMPERIALS/IMPERIALISTS?
The rich nations who used the wealth of the poor nations by robbing, stealing
We are poor and they are rich, so very rich!!
There is poverty everywhere
Civilians are killed by the thousands!!
Entire villages have vanished within hours!!
We live in a cruel world where USA, UK and Europe enjoy our wealth!!
STOP the imperial forces from opening air force bases & harbours in our countries
Tell them we DON'T need them and their WEAPONS OF MASS DESTRUCTION
Don't come here
Go back where you came
We don't need imperial bastards!!
Shame on YOU!!

Please watch http://www.youtube.com/watch?v=J3SU9qUAkSg

Weight loss

This is a case of attempted weight loss with fatal consequences.

In the early morning of February 25, 1990 Terri collapsed in a hallway of her St. Petersburg, Florida, apartment. Firefighters and paramedics arriving in response to Michael's 9-1-1 call found her face-down and unconscious. She was not breathing and had no pulse. They attempted to resuscitate her and she was transported to the Humana Northside Hospital. There, she was intubated and ventilated....

Read her full story at http://en.wikipedia.org/wiki/Terri_Schiavo_case

Sunday 30 October 2011

Human mitochondria and mtDNA

HUMAN MITOCHONDRIA


Functions of Mitochondria
  1. Mitochondria are the "powerhouses" of the cells as they are the site of Oxidative Phosphorylation (OXPHOS) and ATP production (generation of ATP). 
  2. Mitochondria are required for cell proliferation. Lack of mitochondria leads to no cell proliferation. Cells cannot reproduce without mitochondria.
  3. Mitochondria are responsible for programmed cell death (apoptosis)  - This will be studied in Year 2 Medicine. 
Unwanted Activities of Mitochondria
  1. Mitochondrial activity is also responsible for the (unwanted) generation of reactive oxygen species (ROS) which are implicated in neurogenerative diseases, metabolic diseases and also many types of cancer.
  2. Mitochondria are associated with the development and progression of cancer.
Mitochondrial Nucleic Acids
  1. Mitochondrial nucleic acids resemble bacterial nucleic acids
Mitochondrial DNA (mtDNA)
  1. Mitochondrial DNA (mtDNA) is present in mitochondria
  2. Mitochondrial DNA (mtDNA) is circular
  3. MtDNA is 16,569 basepairs (bp) (or approx. 16,500 nucleotides)
  4. MtDNA is present as multiple copies within an individual cell
  5. MtDNA encodes 13 essential polypeptides which are part of the OXPHOS complexes, as well as 22 tRNAs and 2 rRNAs
  6. MtDNA has information to code for the synthesis of 2 ribosomal RNAs (rRNAs), 22 tRNAs and 13 proteins, all of which are components of the electron transport chain (ETC)
  7. Most mitochondrial proteins are encoded by nuclear DNA (nDNA) and are synthesized in the cytoplasm
Dichotomy of Mitochondrial Metabolism
  1. Some mitochondrial protein synthesis is under the control of mitochondrial DNA (mtDNA)
  2. Important proteins of the outer membrane of the mitochondria  are synthesized under the influence of nuclear DNA (nDNA)

External Links
  1. Wikipedia. Mitochondria
  2. Wikipedia. Cambridge Reference Sequence
  3. Nature 290, 457 - 465 (09 April 1981); doi:10.1038/290457a0. Sequence and organization of the human mitochondrial genome
Textbook

Textbook of Biochemistry (For Medical Students), Third Edition, 2004, p416.

Tuesday 25 October 2011

Muscular activity: Energy requirement and Cori cycle



Muscular activity requires energy, which is provided by the breakdown of glycogen in the skeletal muscles. The breakdown of glycogen, a process known as glycogenolysis, releases glucose in the form of glucose-6-phosphate (G-6-P). G-6-P is readily fed into glycolysis, a process that provides ATP to the muscle cells as an energy source. During muscular activity, the store of ATP needs to be constantly replenished. When the supply of oxygen is sufficient, this energy comes from feeding pyruvate, one product of glycolysis, into the Krebs cycle.

When oxygen supply is insufficient, typically during intense muscular activity, energy must be released through anaerobic respiration. Anaerobic respiration converts pyruvate to lactate by lactate dehydrogenase. Most important, fermentation regenerates NAD+, maintaining the NAD+ concentration so that additional glycolysis reactions can occur. The fermentation step oxidizes the NADH produced by glycolysis back to NAD+, transferring two electrons from NADH to reduce pyruvate into lactate. Refer to the main articles on glycolysis and fermentation for the details

Instead of accumulating inside the muscle cells, lactate produced by anaerobic fermentation is taken up by the liver. This initiates the other half of the Cori cycle. In the liver, gluconeogenesis occurs. From an intuitive perspective, gluconeogenesis reverses both glycolysis and fermentation by converting lactate first into pyruvate, and finally back to glucose. The glucose is then supplied to the muscles through the bloodstream; it is ready to be fed into further glycolysis reactions. If muscle activity has stopped, the glucose is used to replenish the supplies of glycogen through glycogenesis.

Anaerobic metabolism: Cori cycle


After completion of this learning unit, you should be able to answer the following questions.

What is the Cori cycle?
When does it work?
What does it do?
Why is it important?


The Cori cycle (also known as Lactic acid cycle), named after its discoverers, Carl Cori and Gerty Cori, refers to the metabolic pathway in which lactate produced by anaerobic glycolysis in the muscles moves to the liver and is converted to glucose, which then returns to the muscles and is converted back to lactate.

The Cori cycle invloves the utilization of lactate, produced by glycolysis in non-hepatic tissues, (such as muscle and erythrocytes) as a carbon source for hepatic gluconeogenesis. In this way the liver can convert the anaerobic byproduct of glycolysis (lactate), back into more glucose for reuse by non-hepatic tissues. Note that the gluconeogenic leg of the cycle (on its own) is a net consumer of energy, costing the body 4 moles of ATP more than are produced during glycolysis. Therefore, the cycle cannot be sustained indefinitely.

Under anaerobic conditions, glucose is metabolized through glycolysis which converts it to two molecules of pyruvate. Only one oxidation step has been performed when glyceraldehyde 3-phospate is oxidized to 1,3-bisphosphoglycerate. To regenerate NAD+ so glycolysis can continue, pyruvate is reduced to lactate, catalyzed by lactate dehydrogenae.   These reactions take place in the cytoplasm of cells actively engaged in anaerobic oxidation of glucose (in yeast; in muscle cells during sprint).   Note that the enzyme is named for the reverse reaction, the oxidation of lactate by NAD+.

The cycle's importance is based on the prevention of lactic acidosis in the muscle under anaerobic conditions. However, normally before this happens the lactic acid is moved out of the muscles and into the liver. The cycle is also important in producing ATP, an energy source, during muscle activity. The Cori cycle functions more efficiently when muscle activity has ceased. This allows the oxygen debt to be repaid such that the Krebs cycle and electron transport chain can produce energy at peak efficiency.



Pathways of Metabolism

 Metabolism

   Carbohydrate Metabolism

   Energy Metabolism

     00190  Oxidative phosphorylation
     00910  Nitrogen metabolism
     00920  Sulfur metabolism

   Lipid Metabolism

   Nucleotide Metabolism (nucleic acids - DNA, RNA)

   Amino Acid Metabolism

   Metabolism of Other Amino Acids

   Glycan Biosynthesis and Metabolism (Master of Medicine - Chemical Pathology)

   Metabolism of Cofactors and Vitamins

   Metabolism of Terpenoids and Polyketides (not covered in Year 1 Biochemistry)

   Biosynthesis of Other Secondary Metabolites

   Xenobiotics Biodegradation and Metabolism (covered by Pharmacology)

   Overview


Genetic Information Processing (Genetics Block)

 Environmental Information Processing

 Cellular Processes (covered by Chemical Pathology, Physiology and Pathology)

 Organismal Systems

 Human Diseases (Introductory in Year 1)

 Drug Development (not taught in undergraduate medicine)

Source: Kegg Brite pathway maps

Electron Transport Chain (ETC) - Protein components; oxidative phosphorylation; reactions; inhibitors

Electron Transport Chain (ETC) 

Electron Transport Chain - components

Synonym: Electron Transport System (ETS)

ATP and Oxidative Phosphorylation

Oxidative Reactions: Dehydrogenases and Oxidases

Inhibitors of Oxidative Phosphorylation

Several chemicals can block electron transfer in ETS, or transfer of electrons to oxygen. All are strong poisons. Examples are:
  1.         Carbon monoxide (CO) -- combines directly with terminal cytochrome oxidase, blocks oxygen attachment.
  2.         Cyanide (CN-) and Azide (N3-) bind to cytochrome iron atoms, prevent electron transfer.
  3.         Antimycin A (an antibiotic) inhibits electron transfer between cyt b and c. 

Animations and videos

http://tube.medchrome.com/2012/04/electron-transport-chain-and-oxidative.html

https://www.youtube.com/watch?v=Fcu_8URp4Ac

SGD: Energy Metabolism in Muscle - sources of energy for muscle contraction

Musculoskeletal Block, MD Phase I 2011/2012
Prepared by Dr Aini Suzana Adenan
17 October 2011

SGD
1. List the sources of energy that can be used for muscle contraction. Explain briefly how energy is derived from these energy sources.

SGD: Energy Metabolism in Muscle - plasma lactate rises after exercise

Musculoskeletal Block, MD Phase I 2011/2012
Prepared by Dr Aini Suzana Adenan
17 October 2011

SGD
2. Explain why plasma lactate level increases after prolonged and severe muscular exercise.

SGD: Energy Metabolim in Muscle - Beta-oxidation of palmitic acid (C16)

Musculoskeletal Block, MD Phase I 2011/2012Prepared by Dr Aini Suzana Adenan
17 October 2011

SGD
3. What is the net number of ATP produced in beta-oxidation of palmitic acid (C16)? Show the calculation.

SGD: Energy Metabolism in Muscle - TCA cycle amphibolic pathway

Musculoskeletal Block, MD Phase I 2011/2012
Prepared by Dr Aini Suzana Adenan
17 October 2011

SGD
4. Give the reasons for calling the TCA cycle as an amphibolic pathway. Name the various substances produced from the following TCA cycle intermediates:


a. Succinyl CoA --> Heme


b. Citrate --> Fatty acids


c. alpha-Ketoglutarate --> Glutamate


d. Oxaloacetate --> Glucose


e. Oxaloacetate --> Aspartate

SGD: Energy Metabolism in Muscle - TCA cycle is aerobic pathway

Musculoskeletal Block, MD Phase I 2011/2012
Prepared by Dr Aini Suzana Adenan
17 October 2011

SGD
5. Give reasons why TCA cycle is an aerobic pathway even though oxygen is not involved directly in its reactions.

SGD: Energy Metabolism in Muscle - Chemiosmotic theory, oxidative phosphorylation, ATP generation

Musculoskeletal Block, MD Phase I 2011/2012
Prepared by Dr Aini Suzana Adenan
17 October 2011

SGD
6. Explain the chemiosmotic theory of oxidative phosphorylation in the generation of ATP.

SGD: Enery Metabolism in Muscle - Inhibitors and mutations of ETC proteins

Musculoskeletal Block, MD Phase I 2011/2012
Prepared by Dr Aini Suzana Adenan
17 October 2011

SGD
7. Inhibitors of the electron transport chain proteins and mutations in the mitochondrial and nuclear DNA that encodes them can cause reduced activity of the electron transport chain. Explain why impairment of the electron transport chain can cause lactic acidosis.

Aerobic & Anaerobic Pathways in Muscles

Musculoskeletal Block, MD Phase I 2011/2012

SLU: Energy Metabolism in Muscle - Aerobic and anaerobic pathways

Prepared by Dr Aini Suzana Adenan
17 October 2011


1. Name the aerobic and anaerobic pathways involved in the production of energy in the muscle cells.

Aerobic:


Anaerobic:

ATP Production in Muscle

Musculoskeletal Block, MD Phase I 2011/2012

SLU: Energy Metabolism in Muscle - ATP production

Prepared by Dr Aini Suzana Adenan
17 October 2011


2. How many ATPs are produced in the catabolism of:

a. glucose to pyruvate?

b. glucose to carbon dioxide and water (complete oxidation) in liver and muscle?

c. glucose to lactate?

SLU: Energy Metabolism in Muscle - Beta-oxidation

Musculoskeletal Block, MD Phase I 2011/2012
Prepared by Dr Aini Suzana Adenan
17 October 2011

SLU
3. Name the products of one cycle of beta-oxidation.

SLU: Energy Metabolism in Muscle - TCA cycle and NADH, FADH2

Musculoskeletal Block, MD Phase I 2011/2012
Prepared by Dr Aini Suzana Adenan
17 October 2011

SLU
4. Where do the TCA cycle reactions occur and how many energy-producing substances are formed?

SLU: Energy Metabolism in Muscle - Oxidation of NADH and FADH2

Musculoskeletal Block, MD Phase I 2011/2012
Prepared by Dr Aini Suzana Adenan
17 October 2011

SLU
5. How many ATP molecules are produced in the oxidation of NADH and FADH2 through the electron transport chain (ETC)?

Inhibitors & Uncouplers of ETC

Musculoskeletal Block, MD Phase I 2011/2012

SLU: Energy Metabolism in Muscle - Inhibitors and Uncouplers of ETC

Prepared by Dr Aini Suzana Adenan
17 October 2011


6. Which of the following is an inhibitor or uncoupler of the electron transport chain (ETC)? Explain their mechanism of action.

a. Cyanide (CN-)

b. Carbon monoxide (CO)

c. 2.4-Dinitrophenol (2,4-DNP)

d. Gramicidin

Medical Biochemistry

The Medical Biochemistry Page is here: http://themedicalbiochemistrypage.org/home.html

Traditional & Herbal Medicine

This video covers some medicinal herbs - peria katak, belimbing tanah, sambung nyawa, hempedu bumi, kemuning Cina (periwinkle), etc. The traditional practitioners (& artist) are interviewed. There are 2 success stories - jus peria katak for gastritis; air rebusan pokok belimbing tanah for hypertension. The massage technique looks good - also works for stroke.

Pusat Rawatan Islam Al-Hidayah

Dear students,

I did not have time to teach you in detail on the topic of Islamic Medicine - Quranic Medicine & Prophetic Medicine. I'm still searching. There are websites that touch on these topics.

Here is information on Quranic Medicine.
http://www.alhidayah-medic.com/prosedur-rawatan/Page-4-1.html

If you visit the page, you will see many conditions listed. There are basically 6 categories of conditions that they treat: pediatric, terminal, fertility, mental/psychological disturbances, addiction, and medical problems.

Pediatric cases include:
Down Syndrome, nephrotic syndrome, cerebral palsy, hydrocephalus, hyperactive, and late brain development.

Terminal conditions include:
Cancers, systemic Lupus erythematosus (SLE), AIDS and HIV.

Fertility problems include:
Fibroid, ovarian cyst, endometriosis, and low sperm count.

Mental/Psychological conditions include:
Conditons resulting from sihir jin, syaitan and iblis, saka, santau, rasuk, susuk, and depression.

Addiction cases include:
Drug addiction, gambling, and alcoholism.

Other cases include:
Diabetes, hypertension, heart problems, gallstones, renal/kidney problems, epilepsy, rheumatism, hepatitis and neurological problems.

My comments:

DIABETES is kencing manis. There is presently no 100% cure known for diabetes nor can the condition be reversed 100% nor does it go away for good. But the condition can be controlled in many ways, for which patients perceived themselves as "cured" or even "cured for good". Death from diabetes is inevitable in the long run but patients die from complications of diabetes, not diabetes itself (i.e., not diabetes per se). Control measures include dietary restrictions, especially carbohydrate intake - there is a need to reduce the amount of rice taken - major source of carbohydrate in our Malaysian diet. The type of rice used and the way the rice is cooked also matter. The usual rice that we take (beras Siam #1 or any of the Malaysian rice variety) is rich in carbohydrate. The rice can be cooked in the usual manner but half way through cooking, the rice water needs to be drained (discarded) and fresh boiled water can be added. The rice is left to cook. This will remove starch from the rice and give a bland taste to the rice (nasi rasa payau). When cooked in this way, the patient can still consume the rice and body weight is easier to control. Another way is to switch to Beras Basmati (or beras wangi). This is an Indian rice variety and is grown in India where the soil is rich in calcium. The rice contains little starch. The patient can eat this rice but because this calcium-rich rice is tasteless, patients tend to eat very little rice. This rice has a plus point - it takes away hunger, i.e., patients only need to eat a little Basmati rice and this will make them feel full for a long time, so patients tend to lose weight rather than gain weight. The Indians eat this rice and can work all day long without additional food between meals.

HYPERTENSION needs proper attention. We eat rice with other accompanying dishes (lauk). Rice is unsalted but the accompanying dishes are what give us a lot of problems. We don't seem to be able to control our salt intake. Salt is usually added to our dishes during cooking, so we have to get the cooks/chefs to control how much salt they add to our food while cooking. But because a lot of the food we eat today are buffet style, they need to last longer than normal, for extended eating times. As such cooks/chefs add more salt to food than necessary so food last longer especially for buffets. There are too other appetizers and condiments are which are salty - ikan bilis, ikan masin, sambal belacan, etc. There are also salted eggs and salted vegetables. It will be better to control intake of these foods in order to avoid hypertension or to help control hypertension. The other source of hypertension is STRESS - exam stress (for students), love stress (for couples), work stress (for working adults), old-age stress (for elderly) and other stress of various sorts.

HEART problems can be an underlying disease and undetectable for a long time (chronic process). When it does show clinical symptoms (what the doctors can detect and therefore investigate), it is too late and often it is irreversible. Surgery is the next best alternative. So prevention is better than cure. Prevention covers 3 aspects - food, exercise and attitude (mood). Good healthy clean nutritious food is best. Constant exercise or movements are good for the muscles and bones. Having a positive attitude and being happy is the best cure for all human problems relating to the heart. Of course a dead heart (a deceased person) can't wake up! The opposite of being happy is being depressed. So try to adjust life to be more on the happy side and enjoy life, but within limits (not beyond limits). You can jump or bounce high, but you still need to keep your feet on the ground. Life has rules - stick to the rules in life. You break the rules, you suffer the consequences. You have yourself to blame for whatever goes wrong with your body, including heart problems. So live safely, healthily and be happy - to guard your own heart. Don't create unnecessary heartache and get heart problems. Heart attack (myocardial infarction or MI) can be avoided. Heart problems are created after all.

GALLSTONES are worth studying. Dietary change is a key means to overcoming gallstones. There are now 3 cures known for gallstones:
(i) Surgical removal of the gallbladder (cholescystectomy) - this procedure costs RM3,000.00
(ii) Take olive oil for 3 days until the gallstones dissolve - cheap; olive oil is RM25 per bottle.
(iii) Quranic Medicine - cheap; RM10 per appointment
External link:
http://www.healthline.com/health/gallstones#Overview1

Prof Faridah
25 October 2011
12 October 2014

Thursday 13 October 2011

Pre-SCL Survey

Dear USM students & lecturers,

I'm helping Prof Abdul Karim with his survey. Be a sport and take his survey if you are a USM student or lecturer. Do it before the deadline, 30 October 2011. Please tell your friends.

TQ

Prof Faridah
--
 The following are his 2 e-mails re the survey. Please take the survey if you are a USM student/lecturer.
--
First e-mail:

Kepada semua penulis modul yang dihormati,

Nak minta tolong sikit. I would be grateful if you could spare some of your precious time to do the above survey. Data from this survey will help the university to formulate strategic transformation plan for P&P. Please also request you students (by announcing it in the lecture or blast the email to students' mailing list) to do the survey. I'm trying my best to reach maximum number of respondents (lecturers & students) via various channels.

Many thanks for your help!

Karim
--
Second e-mail

Dear all,

Thousand apologies...lupa nak bagi link. Here's the announcement for the survey and the link:

USM sedang dalam usaha untuk mentransformasikan kaedah Pengajaran dan Pembelajaran (P&P) selaras dengan plan transformasi APEX dan dasar P&P yang telah ditetapkan oleh Kementerian Pengajian Tinggi. Untuk itu, J/K Senat Khas Pelan Transformasi P&P USM yang dipengerusikan oleh Profesor Abd Karim Alias memerlukan data tentang kaedah P&P yang sedang dipraktikkan oleh pensyarah. Kerjasama pensyarah dan pelajar adalah amat diharapkan untuk melengkapkan soal selidik yang terdapat di pautan berikut sebelum 30 Oktober 2011:

Untuk pensyarah:
http://www.surveygizmo.com/s3/622345/Questionnaire-for-lecturers

Untuk pelajar:
http://www.surveygizmo.com/s3/
622343/Questionnaire-for-students

Mohon kerjasama semua pensyarah untuk menghebahkan survey ini kepada semua pelajar dalam kuliah masing-masing. Link kepada survey ini juga boleh dicapai apabila pensyarah atau pelajar login ke dalam e-learning portal USM bagi kursus masing-masing.

Respon kepada soal selidik ini amat berguna dan penting bagi memberi panduan kepada jawatankuasa merangka suatu pelan transformasi yang mantap dan berkesan.

Sekian, terima kasih.

Karim
------------------------------
Professor Abd Karim Alias
Food Technology Division
School of Industrial Technology
Universiti Sains Malaysia
11800 Penang
Malaysia

Personal website: http://www.indtech.usm.my/karim/AKA/Home.html
Visit my blog: http://onestoplearning.blogspot.com/

Tel: 6046532221
Fax: 6046573678
HP: 019-4408242
------------------------------------------------


Saturday 8 October 2011

TNC HEA&A - Prof Ahmad Shukri Mustapa Kamal

Bengkel Penulisan Modul Pengajaran & Pembelajaran USM
7-9 Oktober 2011
Park Royal Penang Resort, Batu Ferringhi
Pulau Pinang


TNC HEA&A's Speech

Majlis Perasmian oleh YBhg Prof Ahmad Shukri Mustapa Kamal

What transpired ...

Every teacher teaches differently. Some lecturers come to class and write continuously on the transparency (rolled type) and talk/explains without looking at the students. Some come to class and sit on the front desk and start talking, telling stories and asking questions; there are no notes, slides, etc. Some come to class and immediately write questions on the blackboard and the students must work on the problems he wrote on the board.

No senior lecturer will strictly follow a "How to Teach Guide", including Student-Centred Learning (SCL).

Whatever students complain against lecturers to the Dean, the Dean can take action and talk to the lecturers concerned. There will always be a small number of lecturers who are strict and students fail their class, every year.

Lecturers do expect students to be able to do their own reading and be prepared for class but do students know this?

Vietnamese are noted for their mathematical skills. Malaysians can learn from their Vietnamese counterparts.

Just to add my notes: 

French make good mathematicians. The French language is fast, simple with short syllables and makes thinking and speaking fast. Thus French and French speakers tend to be good mathematicians. Vietnamese are French-speaking people. So like their conquerors, they make good mathematicians. However, French aerospace engineering has suffered a lot despite French being good mathematicians. Remember the last of the Concords? Is any flying around today? Concord is French? What happened to Concord? Its pointed nose fell off at take off?

Anyway, respect is still due to all lecturers/professors regardless of their teaching styles. No one particular style will fit everyone.

Do not blame yourself for poor learning. It is just that you did not make full use of your time, effort and capabilities while still within the university system. You still have time to learn. Learning is lifelong.

Technology evolves and so do teaching and learning styles. Nothing remains the same. Some do eventually become obsolete.

Not being techno-savvy should not mean lecturers/professors from the older generation are no good or useless. Quite the contrary occurs in the real world. Lecturer/professors from the older generation have the resources and means (i.e., $) for purchasing technological products/gadgets. So they will tend to be techno-savvy than the younger generation. Of course the younger generation like and want some technological gadgets and they go all out to purchase their dream machines. However, the younger generation have a limited cash supply or reserve and can sometimes only make one such purchase. So in the long run, the younger generation often jump in to purchase what they perceive as a necessary gadget and purchase it right away - it will be their first and also last purchase as they do not have a large cash reserve to make another purchase anymore.

Do not be deceived by young people showing off their new techno gadgets - that's all they have anyway. Instead, go to the older generation who more often than not, have more cash reserve than they will ever need for their remaining life on earth and can afford to waste $ on techno gadgets that they actually do not need. Tell me, which scraggly old man needs a brightly coloured smartphone that says repeatedly, "It's me honey!" and flashes an image of his fatally beautiful dream woman every time a call comes in and the phone rings? Old as he may be, he is in twilight zone with his right foot in the dark zone - i.e., at the end of his phase in life on earth. What is there to look forward to when one is at the brim of death? Don't tell me that smartphones get buried with their owners?! The world must crazy if that holds true!

Prof Faridah

Wednesday 5 October 2011

Anion Gap

Introduction

The anion gap is the difference in the measured cations and the measured anions in serum, plasma, or urine. The magnitude of this difference (i.e. "gap") in the serum is often calculated in medicine when attempting to identify the cause of metabolic acidosis. If the gap is greater than normal, then high anion gap metabolic acidosis is diagnosed.

The term "anion gap" usually implies "serum anion gap", but the urine anion gap is also a clinically useful measure.

Calculations

Determination of serum cations include Sodium (Na+) and Potassium (K+).  Calcium (Ca2+) and Magnesium (Mg2+) values are rarely used (as these are doubly-charged ions).

Determination of serum anions include Chloride (Cl) and Bicarbonate (HCO3). Phosphates and sulphates are not determined.


The old concentrations were expressed in units of milliequivalents/liter (mEq/L). The more recent and preferred way is to express all components in millimoles/litre (mmol/L).

There is a simple formula for calculating anion gap, that uses a potassium term or the potassium term can be omitted altogether.

 

With potassium included in the calculation

It is calculated by subtracting the serum concentrations of negatively-charged ions chloride and bicarbonate (anions) from the concentrations of positively-charged ions sodium and potassium (cations):
Anion Gap = [Na+] + [K+] − [Cl] − [HCO3]

Without potassium included in the calculation (Daily practice)

However, the potassium is frequently ignored because potassium concentrations, being very low, usually have little effect on the calculated anion gap. This leaves the following equation:
Anion Gap = [Na+] − [Cl] − [HCO3]
Uses

Anion gap is an 'artificial' and calculated measure that is representative of the unmeasured ions in plasma or serum (serum levels are used more often in clinical practice).

Commonly measured cations include Sodium (Na+), Potassium (K+), Calcium (Ca2+) and Magnesium (Mg2+).

Cations that are generally considered 'unmeasured' include a few normally occurring serum proteins, and some pathological proteins (e.g., paraproteins found in multiple myeloma).

Likewise, commonly 'measured' anions include chloride (Cl), bicarbonate (HCO3) and phosphate (H2PO4), while commonly 'unmeasured' anions include sulphates and a number of serum proteins.

By definition, only Na+, Cl and HCO3 (+/- K) are used when calculating the anion gap.

In normal health there are more measurable cations compared to measurable anions in the serum; therefore, the anion gap is usually positive. Because we know that plasma is electro-neutral we can conclude that the anion gap calculation represents the concentration of unmeasured anions.

The anion gap varies in response to changes in the concentrations of the above-mentioned serum components that contribute to the acid-base balance.

Calculating the anion gap is clinically useful, as it helps in the differential diagnosis of a number of disease states.

Reference values (Reference range; Normal values; Normal value ranges)

Modern analyzers make use of ion-selective electrodes (ISE) which give a normal anion gap as <11 mmol/L. Therefore according to the new classification system a high anion gap is anything above 11 mmol/L and a normal anion gap is often defined as being within the prediction interval of 3–11 mmol/L, with an average estimated at 6 mmol/L.

In the past, methods for the measurement of the anion gap consisted of colorimetry for [HCO3] and [Cl] as well as flame photometry for [Na+] and [K+]. Thus normal reference values ranged from 8 to 16 mmol/L plasma when not including [K+] and from 10 to 20 mmol/L plasma when including [K+]. Some specific sources use 15 and 8–16 mmol/L.

A reference range provided by the particular lab that performs the testing should be used to determine if the anion gap is outside of the normal range. A certain proportion of normal individuals may have values outside of the 'normal' range provided by any lab.

Interpretation

Anion gap can be classified as either high, normal or, in rare cases, low. Laboratory errors need to be ruled out whenever anion gap calculations lead to results that do not fit the clinical picture.

Methods used to determine the concentrations of some of the ions used to calculate the anion gap may be susceptible to very specific errors. For example, if the blood sample is not processed immediately after it is collected, continued leukocyte cellular metabolism may result in an increase in the HCO3 concentration, and result in a corresponding mild reduction in the anion gap.

In many situations, alterations in renal function (even if mild, e.g., as that caused by dehydration in a patient with diarrhoea) may modify the anion gap that may be expected to arise in a particular pathological condition.

A high anion gap indicates that there is loss of HCO3 without a concurrent increase in Cl. Electroneutrality is maintained by the elevated levels of anions like lactate, beta-hydroxybutyrate and acetoacetate, PO4, and SO4. These anions are not part of the anion-gap calculation and therefore a high anion gap results. Thus, the presence of a high anion gap should result in a search for conditions that lead to an excess of these substances.

HIGH ANION GAP

The anion gap is affected by changes in unmeasured ions. A high anion gap indicates acidosis. e.g. In uncontrolled diabetes, there is an increase in ketoacids (i.e. an increase in unmeasured anions) and a resulting increase in the anion gap. In these conditions, bicarbonate concentrations decrease, in response to the need to buffer the increased presence of acids (as a result of the underlying condition). The bicarbonate is consumed by the unmeasured anion (via its action as a buffer) resulting in a high anion gap.
  • Lactic acidosis
  • Ketoacidosis
    • Diabetic ketoacidosis
    • Alcohol abuse
  • Toxins:
    • Ethylene glycol
    • Lactic acid
    • Uremia
    • Methanol
    • Propylene glycol
    • Phenformin
    • Aspirin
    • Cyanide, coupled with elevated venous oxygenation
    • Iron
    • Isoniazid
  • Renal failure, causes high anion gap acidosis by decreased acid excretion and decreased HCO3 reabsorption. Accumulation of sulfates, phosphates, urate, and hippurate accounts for the high anion gap.
Note: a useful mnemonic to remember this is MUDPILES (methanol, uremia, diabetic ketoacidosis, propylene glycol, isoniazid, lactic acidosis, ethylene glycol, salicylates). A newer mnemonic CUTE DIMPLES includes C for Cyanide and T for Toluene. Historically, the "P" in MUDPILES was for paraldehyde. As paraldehyde is no longer used medically, the "P" in the MUDPILES mnemonic currently refers to propylene glycol, a substance common in pharmaceutical injections such as diazepam or lorazepam. Accumulation of propylene glycol is converted into lactate and pyruvate, which causes lactic acidosis. GOLDMARK standing for glycols, oxoproline, L-lactic acidosis, D-lactic acidosis, methanol, aspirin, renal failure, and ketoacidosis is also used as a mnemonic for the causes of high anion gap in metabolic acidosis.

NORMAL ANION GAP

In patients with a normal anion gap the drop in HCO3 is compensated for almost completely by an increase in Cl and hence is also known as hyperchloremic acidosis. The HCO3 lost is replaced by a chloride anion, and thus there is a normal anion gap.
  • Gastrointestinal loss of HCO3 (i.e., diarrhoea) (note: vomiting causes hypochloraemic alkalosis)
  • Renal loss of HCO3 (i.e. proximal renal tubular acidosis (RTA) also known as type 2 RTA)
  • Renal dysfunction (i.e. distal renal tubular acidosis also known as type 1 RTA)
  • Ingestions
    • Ammonium chloride and Acetazolamide, ifosfamide.
    • Hyperalimentation fluids (i.e. total parenteral nutrition, TPN)
  • Some cases of ketoacidosis, particularly during rehydration with Na+ containing IV solutions.
  • Alcohol (such as ethanol) can cause a high anion gap acidosis in some patients, but a mixed picture in others due to concurrent metabolic alkalosis.
  • Mineralocorticoid deficiency (Addison's disease)
Note: a useful mnemonic to remember this is FUSEDCARS (fistula (pancreatic), uretogastric conduits, saline administration, endocrine (hyperparathyroidism), diarrhea, carbonic anhydrase inhibitors (acetazolamide), ammonium chloride, renal tubular acidosis, spironolactone)

LOW ANION GAP

A low anion gap is frequently caused by hypoalbuminemia. Albumin is a negatively charged protein and its loss from the serum results in the retention of other negatively charged ions such as chloride and bicarbonate. As bicarbonate and chloride anions are used to calculate the anion gap, there is a subsequent decrease in the gap.

In hypoalbuminaemia the anion gap is reduced from between 2.5 to 3 mmol/L per g/dL decrease in serum albumin. Common conditions that reduce serum albumin in the clinical setting are hemorrhage, nephrotic syndrome, intestinal obstruction and liver cirrhosis.

The anion gap is sometimes reduced in multiple myeloma, where there is an increase in plasma IgG (paraproteinaemia).

Corrections can be made for hypoalbuminemia to give an accurate anion gap.


Source:
Anion Gap in Wikipedia


Hyperchloremic acidosis

Introduction  

Hyperchloremic acidosis is a form of metabolic acidosis associated with a normal anion gap, a decrease in plasma bicarbonate concentration, and in an increase in plasma chloride concentration (see anion gap for a fuller explanation).

Causes
  • Renal tubular acidosis failure of HCO3- resorption (i.e., proximal renal tubular acidosis) or failure of H+ secretion (i.e., in distal renal tubular acidosis)
  • Renal failure
  • Gastrointestinal loss of HCO3- with diarrhoea (vomiting will tend to cause hypochloraemic alkalosis).
  • Ingestions
    • Ammonium chloride, Hydrochloric acid
    • Hyperalimentation fluids (i.e., total parenteral nutrition, TPN)
  • Alcohol (such as ethanol) can affect anion gap by inducing alcohol dehydrogenase enzyme.

Source:
Hyperchloremic acidosis in Wikipedia

Evaluation and Treatment of Classic Hypokalemic Distal Renal Tubular Acidosis

Since normal anion gap hyperchloremic metabolic acidosis is a feature in patients with classic dRTA, diagnosis begins with a history and physical examination (PE) to rule out (TRO) other conditions. The condition of the urine gives a lot of clues to the underlying cause and of RTA.

Lab investigation

STEP 1

The laboratory evaluation should be initiated with the examination of the urine.

If the acidosis is the result of an extrarenal disorder, such as diarrhea, the urine will be rich in ammonium. This can easily be disclosed by measuring the urinary electrolytes. There will be considerably more chloride than sodium (plus potassium), usually more than 50 mmol/L. In other words, the anion gap will be minus 50 or more. The missing cation is ammonium. Patients with dRTA or related syndromes typically have more cation than chloride in the urine when they are acidemic, indicating reduced ammonium excretion and, hence, defective acidification. Once the diagnosis of an RTA syndrome has been made, the urinary anion gap has no further use, since it is abnormal in all RTA syndromes.

STEP 2

The next step is to categorize patients according to serum potassium -- those with a low (or normal) serum potassium and those in whom it is elevated. The first group can be further subdivided into those patients in whom the urine pH can be lowered below 5.5 and those in whom it cannot. When proximal RTA has been excluded by measuring fractional bicarbonate excretion at a serum HCO3 greater than 20 mmol/L, distal RTA can be diagnosed with certainty in those whose urine pH is greater than 5.5 at an acid systemic pH.

STEP 3

Patients in whom urine pH can be lowered below 5.5 and in whom a proximal lesion has been ruled out can then be given sodium bicarbonate intravenously; if the urine PCO 2 fails to rise normally, the diagnosis of rate-dependent dRTA can be made.

Children will need alkali therapy for normal growth.

Maintenance on alkali therapy can be for indefinite period in some cases.

Source: More at WebMD