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Showing posts with label CDC. Show all posts
Showing posts with label CDC. Show all posts

Sunday, June 7, 2015

Senescence

Gingko Biloba Tree


Senescence is the process of growing old, or aging.  Senescence can refer to a process that occurs on many different levels, from cellular levels, to the whole body level, to higher organizational levels and including physical and psychological structures.

Aging occurs at different rates and different times in different life forms.  Senescence is directly or indirectly a major cause of death.  Senescence may reflect underlying biological processes, mediated by gene expression, can reflect programmed cell death and can be accelerated by environmental factors, such as exposure to radiation.

My 2014 blog article discusses senescence in  the Gingko Biloba Tree, a living fossil dating back to the Permian era (270 million years ago), which exhibits clonal reproduction.  Natural leaf senescence in the Gingko Biloba has been researched in male and female trees, with regards to impacts of reactive species and anti-oxidants on the rates of senescence.

Senescene on a cellular level, expressed as replicative senescence, reflects a cell's attainment of the Hayflick limit.  The Hayflick limit refers to a limit on the shortening of DNA telomeres,  which cap the ends of the DNA strands.  As the cell divides, it loses telomeres in the division process.  The Hayflick limit reflects the end of the telomere line, at which point the cell becomes senescent.  Senescence is accelerated by exposure to reactive oxygen species,  exposure to oncogenes, and to cell to cell fusion, a process where cells join to form what is callled a 'syncytium'.  I discuss a number of the processes that may encourage the early development of senescence in other blog articles, listed below.

Exposure to radiation generates reactive species.  This can include anything from high energy ionizing radiation which liberates electrons from atoms and molecules, to non-ionizing radiation.   Ionizing radiation may include cosmic and gamma rays and some ultraviolet wavelengths.  Geomagnetic storms may result in increased exposure to high energy particles, as would exposure to nuclear radiation.

Non-ionizing radiation includes radar microwaves and those used by cell phones, which can disturb lymphocytes  in rats. Some ultraviolet wavelengths including UVA, UVB and UVC are non-ionizing. Disturbances in the Ozone layer result in increased ultraviolet exposure, with the Antarctic having historically greater ozone depletion than the Arctic. 

 Reactive species can be produced through natural bodily process, in Oxidative Phosphorylation (OXPHOS), in the production of Adenosine Triphosphate (ATP) through mitochondrial processes.  The Metabolic Theory of ecology deals with these issues. It reflects Kleiber's Law which relates metabolism to body weight .  I discuss these issues in my blog on "The Odd Couple - The Mitochondria and the Cell Nucleus", where cellular processes are both exposed to and create oxygen radicals.  This article also discusses other sources of reactive species, including pollutants, chemicals and toxins.

Exposure to oncogenes can also lead to senescense.  Oncogenes can arise from a variety of sources, including potentially avian sources which operate within our body's innate and adaptive immune system transcription factors.

Induction of cell-cell fusion, as occurs in syncytium, can also lead to senescence.  Syncytium can form in protists such as rhizarians, in fungi, in heart muscle and skeletal muscle, and, importantly, in the placenta where they take on a meaning relating to group immunity systems, as discussed in my blog article.  The heart is a critical organ in the human body and tests such as the Cardiac MRI Adenosine Stress Test (using a gadolinium contrast agent) tests the ability of the heart to act "in sync".

 Adenosine is an important nucleoside which modulates a variety of important physiological processes, including heart activity, and as an important moderator of the sleep-wakefulness cycle. Caffeine is an antagonist of adenosine receptors in the brain.  The action of Adenosine is also impacted by theophylline (found in tea) and theobromine (found in chocolate). Adenosine is an inhibitor of the central nervous system and relaxes the heart muscle.  Adenosine also increases hair thickness.  The modulation of adenosine may be related to senescence.

Organismal senescence is a decline in the ability of the organism to respond to stress, and an increase in various symptoms characteristic of aging, including a decline in homeostasis, the ability of the body to respond to various cues.  Alzheimer's Disease is one condition which may be associated with senescence, and may relate to various environmental factors as discussed in my blog article.

Senescence can be mitigated through increased exposure to anti-oxidants, which can be obtained through certain foods (e.g. blueberries are a food high in anti-oxidants),  and internally through transcription factors such as superoxide dismutase.

Senescence may be impacted by a variety of processes germane to environmental issues relating to climate change and global warming, including natural processes and anthropogenic forcing (originating in human activity).  These processes may all impact factors germane to reactive oxygen species and anti-oxidants.









Sunday, May 31, 2015

Bacillus Anthracis Issues



The CDC is investigating an unintentional release of anthrax  from the Department of Defense (DOD) to multiple labs in multiple states.  An article from Voice of America indicates 24 labs in 11 states and 2 countries (South Korea and Australia) have received "suspect samples" of concern.

Anthrax has quite a history, both in its naturally occuring state and as a biological weapon, as documented by the Center for Disease Control (CDC).  There have been a number of anthrax "releases" over time,  Recently, in 2014 there was a release at CDC's Roybal Campus .  The year 2001 saw a wave of anthrax attacks.  A CDC review discusses the 2001 attacks in some detail as well as discussing epidemiological findings. and provides a history of anthrax., both in a naturally occurring state and as a biological weapon.

One interesting development has been the appearance of bacillus anthracis in heroin used by European drug users.  The strain involved originated in Turkey, raising a question as to how bacillus anthracis would get into the heroin supply.

The CDC provides basic information on Bacillus Anthracis.  The bacteria Bacillus Anthracis exists in a dormant, sporulated state in nature, can enter the body by a variety of routes (e.g. cutaneous or inhalation pathways), become activated, spread throughout the body, multiply and produce toxins.

These incidents all represent an interesting pattern in the release of bacillus anthracis into the biosphere, taking into consideration emerging environmental issues regarding climate change.  The question is to what extent the environment adapts or reacts to environmental challenges thrown its way.

As this CDC case investigation indicates, it is difficult to investigate individual cases of anthrax when they occur.  Human cases of anthrax are rare, despite the fact that Bacillus Anthracis can be found naturally in the soil and commonly infects domestic and wild animals throughout the world.  There may be a number of reasons for this apparent paradox, which is under investigation.

My blog article "Panspermia and Evolution" discusses Bacillus Anthracis and the distribution of life in the context of extreme environments.  These are the types of situations involving low probability, high impact events.

Bacillus Anthracis is mentioned in a few of my blog articles, "Evolution of Adaptive Immunity" and in an article on "Ebola".

Bacillus Anthracis needs oxygen in order to sporulate.. This is a very interesting characteristic that may provide clues to it's activity, especially in the human body. Iron is a key element in the human body, intimately associated with a number of metabolic processes, including its role in hemoglobin and the delivery of oxygen throughout the body.

Indeed, Bacillus Anthracis uptakes iron when exposed to superoxide stress.   Bacillus anthracis experiences rapid sporulation in a high iron, glucose free environment.  Apparently, Bacillus Anthracis may operate as a signaling mechanism triggering iron accumulation when exposed to environmental stresses, impacting the iron catalyst of the  Fenton reaction.

Transferrin blocks growth of Bacillus Anthracis via iron deprivation, an effect that is differentially expressed in cutaneous anthrax vs inhalational anthrax. This difference, in the latter case, is due to phagocytosis by macrophages, a process which occurs upon inhalation, allowing the inhaled spores to germinate intracellularly, multiply and cause infection.

It is apparent that Bacillus Anthracis forms the heart of a mystery, a challenge, as we seek to better understand the manner in which it expresses, affecting a number of medical processes in the human body. At the same time, we examine other issues impacting society on a global level, issues of climate change, global warming and their interactions with the changing environment in which we live.  These issues will be discussed in further blog articles.

Center for Disease Control (CDC):
  CDC Investigating unintentional DoD shipment of anthrax
  Anthrax
  A History of Anthrax
  CDC Director Releases After-Action Report on Recent Anthrax Incident
  CDC Responds to Anthrax - 2001
  Review of Fall 2001 Anthrax Bioattacks
  Injectional Anthrax in Heroin Users - 2000 -2012
  Anthrax - Basics
  Investigation of Inhalational Anthrax Case - United States

Voice of America -"Carter Vows to Find Those Responsible for Anthrax Shipment"

American Veterinary Medical Association (AVMA) - Anthrax FAQ

marilyndunstan.blogspot.com
   Panspermia and Evolution
   Evolution of Adaptive Immunity
   Ebola

Medical Microbiology - Bacillus
Journal of Bacteriology - Cellular Iron Distribution in Bacillus Anthracis
Journal of Microbiological Methods - Rapid Sporulation of Bacillus Anthracis in a high iron-glucose free media
Journal Biological Chemistry - Human Transferrin Confers Serum Resistance Against Bacillus anthracis

IUPAC - Gold Book - Fenton Reaction

Wikipedia:
  Oxidative Stress
  Phagocytosis
  Macrophage






Friday, January 23, 2015

Avian Flu - H5N1/H5N2/H5N8 - Pacific Northwest

Emergence of Highly Pathenogenic Flu in the Pacific Northwest (H5N1, H5N2 and H5N8)




A Highly Pathenogenic Strain of Avian Flu (WHO), H5N1, has appeared in Whatcom County, Washington, in the Pacific Northwest, according to a report filed by Dr John Clifford, United States Department of Agriculture with the World Organisation for Animal Health (OIE). The report was filed 1/20/2015 for an event starting on 12/29/2014.  The incident involved a Green-winged Teal:Anatidae (Anas carolinensis).

The H5N1 strain's Eurasian lineage genes ( (PB2, H5, NP, MP) are over 99% identical to a gyrfalcon H5N8 strain found in Whatcom County.  It's North American lineage gene PB1 is 98% identical to a Northern Pintail H5N2 strain also found in Whatcom County, while other North American lineage genes (PA, N1, NS) are of low pathenogenicity (LPA I), according to the report filed with the OIE. This strain is a novel strain, and is different than strains appearing in Asia.

Discussion by Recombinomics  raises "the possibility of multiple constellations with the H5N2 sero-type"

The Pacific Northwest has experienced H5N2 and H5N8 strains during this fall and winter season in bird populations, as indicated by the US Department of Agriculture.



Birds affected by avian flu this fall/winter 2014/5 season have included:

H5N1:  Green-winged Teal, Whatcom County, Washington.

H5N2:  Northern Pintail (Whatcom County, Washington), Broiler, Table Egg Layer, Turkey, chickens (Southern British Columbia), ducks and geese (Clallam County, Washington), mallard (Fern Ridge, Oregon), falcons (Canyon County, Idaho), turkeys, chicken, guinea fowl, water fowl (Benton County, Washington) .

H5N8: guinea fowl, chickens, ducks, geese (Winston, Douglas County, Oregon) , Wild Ducks (Idaho), grylfalcons, American Wigeon. guinea fowl, chickens, ducks and geese (Whatcom County, Washington)

The distribution of H5N2 and H5N8 in the Pacific Northwest shows an interesting pattern. Whatcom County, adjacent to the border between Washington State and British Columbia (Sumas-Lynden border crossing) offers an opportunity for mixing of the various avian flu types, given migratory paths and poultry stocks in the area. Other areas of concentration include Benton County, Washington, near Hanford, Washington as well as areas in Oregon and Idaho.

Avian Flu has a considerable impact on bird populations.  There have been limited cases of H5N1 in the human population, although one did occur in 2014 resulting from a flight from Beijing to Vancouver Canada and on to Edmonton.

Avian influenza is a disease naturally occurring in wild aquatic birds which can infect domestic poultry and other bird and animal species.  It is very difficult for humans to become infected by avian influenza, although there have been some limited human cases.  H5N1 is sustained in the avian (bird) population but not is not currently sustained in the human population.

There has been one human death from H5N1 in North America.  On December 27, 2013, a woman travelling from Beijing, China, to Vancouver, B.C. and then onto Edmonton, Alberta, Canada, became ill on the Beijing to Vancouver leg of the flight. She was admitted on January 1, 2014 to an Edmonton hospital and died two days later.

The Centers for Disease Control and Prevention (CDC) is the lead U.S. Agency for the management of health issues and has information on Avian Flu.

Recombinations and reassortments of influenza viruses provide potential opportunity for the development of new strains or of human to human transmission.  The occurrence of  H5N1, H5N2 and H5N8 in the Pacific Northwest in the fall-winter 2014-5 season raise interesting questions as to the development of the one H5N1 case identified this season and as to whether there is any relationship with the H5N1 death which occurred in the prior (2013-2014) fall-winter season.

It is interesting to consider various factors which may account for the development of highly pathenogenic avian influenza in the Pacific Northwest.  These considerations may involve the locations in which the birds were found, migratory patterns, climate change, environmental factors, and the availability of reservoirs and vectors in which the virus can mix, spread and potentially become sustained in various host or intermediate host various populations.

Marilyn Dunstan Photography
Mallard Duck Flying
Ducks

Centers for Disease Control & Prevention:
CDC
CDC-Avian Flu
Human Infection with Avian Influenza A (H5N1) Virus


World Health Organization:
WHO
WHO-Avian Flu

World Organisation for Animal Health (OIE)
Gyrfalcon H5N8
Northern Pintail H5N2







Thursday, November 20, 2014

Ebola


Raudfjorden Beach, Svalbard, Norway

The Ebola outbreak has proven to a challenge for worldwide heatlh leaders.  The CDC has information about Ebola on its website, as does the World Health Organization (WHO).  The CDC information is delineated into a number of topical areas of interest to subject audiences.  I'm interested in the etiology of Ebola, its transmission, and issues surrounding its current outbreak.

My interest in Ebola began during my actuarial career, reading the "Hot Zone" , a 1994 non-fiction book about incidents involving viral hemorrhagic fevers, including ebolaviruses and marbug viruses. The memory of the book stayed with me since I was reading it while sailing down the west coast of Vancouver Island in 15 foot swells in a sailing vessel.  I can recall eating copious amounts of ginger cookies to ward off seasickness as I read of hemorrhagic fevers killing off people very quickly, in a very bloody and gory fashion, as all the while I was lurching back and forth in the sea and swell on the Pacific Ocean.  The ginger cookies did their job and the memory is etched in my experience, gone but not forgotten, as Ebola emerges again, this time, expressed  in the news of an outbreak.

These hemorrhagic diseases killed off people before they had a chance to spread extensively, and, were confined to certain areas in Africa and mostly away from major population centers.

According to the CDC, the virus can be spread through direct contact with blood and body fluids of a person infected with Ebola, with objects such as syringes infected with Ebola and infected fruit bats or primates.  The question remains as to factors impacting the geographical distribution of Ebola, how it independently arises, factors of etiology and its potential spread elsewhere.

The recent upswing in the Ebola virus prompted me to question its etiology, transmission and other issues.  For example, because of the increase in number of cases, I wondered if the virus had recombined with another virus to increase its transmission and decrease its mortality, or if there were other factors.   In this blog article I consider a number of issues, and raise some questions relating to the virus.


Etiology
  • Does Ebola predate the AIDs/SIV/HIV viruses and does it provide some idea of the origin of these viruses? The CDC expresses that it does not know the origin of the original host of the Ebola Virus;  It is interesting to study the context of the Ebola virus regarding its emergence out of the Kinshasha Highway  across the Congo into Uganda as discussed in "The Hot Zone".  Did the virus have origins in bat habitats such as caves, rock, lava tubes, environments exposed to varying bacteria and archaea?
  • The Ebola virus is a negative sense RNA virus. The production of proteins from a negative sense RNA virus require first the production of Messenger RNA (mRNA) and then proteins from mRNA. Ebola does not have reverse transcriptase, which would ordinarily be needed to enable insertion of its genetic contents into the DNA.   Is its 'purpose' then to directly produce mRNA (messenger RNA), and why? Research has shown that the filoviruses behind Ebola are very old and that there is direct insertion of genetic content with indications of evolutionary divergence a long time ago.  - The Lin Edwards article, "Ebola and Marburg viruses may be much older than thought" discusses this subject.
  • Does the Ebola virus relate to issues concerning New World Monkeys and Old World Monkeys and the divergence of the two species?  If so, would this tend to indicate the same type of environmental conditions that may have existed at the time of that divergence?
  • What is the distribution of the virus?  Does the virus act with regards to specific populations, affecting certain populations in a negative or positive way, and leaving others untouched.  What factors in these populations would account for the outbreak?  Are other populations at risk?

Transmission
  • Did the Ebola virus recombine with another virus (for example the Corona Mers Virus  , Seasonal Flu Virus or enteroviruses) to allow it to decrease its mortality rate and increase its transmission?  Is it continuing to do so and would further recombination with the current seasonal flu change it further along these lines? 
  • A subject of interest to is transmission of Ebola from the natural host to a target population.  Is Ebola being expressed, sustained within the target population or being sequestered?  Does this imply sequestration in a host for transmission or expression later under circumstances that may enable it to be used as a regulatory operator or a mediator of group identity or expression of  immunity systems?  Is it developing a symbiotic relationship with the host or another virus in a toxin/anti-toxin sort of manner (discussed by my blog article on Dr Luis Villarreal and his work on group identity systems)? How does this concept explain the existence of this virus in a reservoir species?
  • What is the risk for the spread of Ebola?  To what extent is the risk environmental and to what extent can it be transmitted from person to person? 
  • Is Ebola being transmitted in a less than lethal form under our eyes without our knowledge?
  • Can Ebola be spread by more species of animals than listed under the CDC website?  
  • How might Ebola change to become more transmissible to a greater variety of populations impacted by different environmental factors?  How would this risk change if the Ebola virus were to combine with the seasonal flu in a variety of different ways?

Geological Factors
  • What factors in Africa are most significant in the etiology of Ebola?  Heat, humidity, coeexistence with and diversity of animal species, alkaline environments, carbon dioxide sequestration and outgassing (e.g. Lake Nyos), the Archaean basement substrate of the West African bedrock, granite, uranium, endospores such as bacillus anthracis, and  natural nuclear fission reactors from underground uranium (Gabon)? 
  • What is the impact of the African mining fields?  Iron, gold, lead, silver, arsenic, mercury , uranium and nickel are among products of mining.  Nickel has a positive feedback impact on inflammatory markers. 
  • How do endospores such as bacillus anthracis  fit into the story of Ebola, set in the mining context of West Africa, with its iron, gold, silver, arsenic, uranium, nickel and mercury, and the expression of inflammatory markers and feedback indicators?
  • Are these various environmental issues constrained to Africa or are they present in other environments, and where do other similar environmental conditions exist?  Do these conditions have to exist in the same place or can an individual experience them by exposure to a variety of locations? For example, Archaean basement layers of rock exist in the Arctic, in Svalbard, which I visited in 2005. How would exposure to Archaea and other factors present in West Africa differ from the situation in Svalbard where it is much colder! Where else can we find archaea and chiral substances?
  • How do increases in solar radiation  and changes in the Earth's magnetic field impact the expression of Ebola in Africa? To what extent would these factors affect the expression of Ebola in other areas of the planet?

Environment and Physiology
  •  Does the emergence of a disease that promotes bleeding have significance as it relates to climate change or other planetary or environmental factors?    Is some environmental change occurring that would result in blood clotting more easily, something that would need to be countered by less viscous blood and changes in the coagulation cascade?
  • How might the environmental factors in Africa affect blood coagulation?  Through mitochondrial regulation as it is impacted by environment, haplogroups and uncoupling in oxidative phosphorylation?  Through the impacts of oxygen reactive species?  Through solar radiation, geomagnetic storms and cycles?  Through the Warburg effect  (which replaces aerobic respiration with glycolysis)? Through arsenic mining?  Through positive feedback mechanisms involving hypoxemia  and inflammatory responses?  
  • Is it possible that the Archaean basement layer of rock in West Africa impacts the blood coagulation cascade  and the blood vasculature through chirality?  Would concepts of fractal dimension  and tortuosity explain concepts of blood coagulation and vascular inflammation and other disorders, including stroke and cancers, including those of the blood and lymphatic systems?  
  • What impact does the water people drink (and breathe through water vapor) impact people, including the impact on group identity systems and physiological parameters?
  • Does the outgassing  of carbon dioxide  as a result of global warming, the release of iron from iron sequestered in the rock, and the release of endospores from sequestration, explain any of the natural events happening today, as regards vascular and coagulation issues?
  • Is it possible that Ebola, as a disorder that promotes bleeding, developed as a feedback mechanism to counter the impact of increased blood coagulation due to the environmental impacts raised above? 
  •  Bleeding may increase as blood coagulation factors are used up; does Ebola act to promote such bleeding to counter increases in clotting factors secondary to these environmental issues?  Is it possible that Ebola thus impacts the regulatory mechanisms of the coagulation cascade?

Detection
  • Could an easy detection test be done for Ebola using, for example, saliva? This might prove less expensive and easier to measure for initial testing prior to full blood workups if it was sufficiently sensitive and specific.
  • Could the d-dimer test and PPT tests be used as early indicators of Ebola.
  • Can a series of early indicators, including markers of respiratory and coagulation system function and exposure to certain environmental factors, be developed to ascertain risk patterns for specific populations?  
  • Where might the solution to Ebola be found?  Only time will tell.  Are lamprey VLR's a potential solution for isolating, detecting, and finding a cure for Ebola, considering their ability to detect bacillus anthracis and their affinity for carbohydrate glycoproteins?  Considering the age of the filoviruses and the characteristics of Ebola itself, is this a potential area to investigate?

Summary

Does the emergence of Ebola reflect the re-emergence of ancient historical patterns?  Have these patterns been carried by reservoir species from the depths of time to the particular victims of Ebola? Will Ebola adapt and spread elsewhere or re-emerge in other parts of the planet, independently?

Are the issues happening in West Africa an early indicator ('Canary in a Coal Mine')  of planetary changes?  These changes include changes in Earth's magnetic field, climate change, global warming and solar radiation, and downstream effects including release of sequestered minerals and gases such as carbon dioxide and methane from rock and oceans.  These are all areas of concern.  Historical examples of changes in Earth's magnetic field are shown over longer periods of time and more recent geologic time periods in this Wikipedia article on the Earth's Magnetic Field.

Finally, I am reminded of the childhood game, "Animal, vegetable or mineral" and associations with the "Tree of Life" (and probably, by extension, "The Tree of Good and Evil").  Ebola is a disease with a past, reflecting deep phylogeny and the rivers of time as embedded in the history of our rocks.

Sources:

marilyndunstan.blogspot.com
Evolution of Adaptive Immunity

Wikipedia:
Ebola virus disease
"The Hot Zone"
Kinshasha Highway
Archaea
Sense (molecular biology)
Messenger RNA
Reverse Transcriptase
Filoviridae
New World Monkey
Lake Nyos
Endospore
Bacillus Anthracis
Natural nuclear fission reactor
Nickel
Chirality
Sunlight
Earth's Magnetic Field
Oxidative Phosphorylation
Reactive Oxygen Species
Geomagnetic Storm
Warburg Effect
Glycolysis
Coagulation Cascade
Fractal Dimension
Tortuosity
Outgassing
Carbon Sequestion
Animal Sentinel
Earth's Magnetic Field-Geomagnetic Polarity
Earth's Magnetic Field-Brunhes Geomagnetism
Earth's Magnetic Field

World Health Organization:
Ebola Virus Disease

CDC:
CDC
Ebola (Ebola Virus Disease
2014 Ebola Outbreak in West Africa (Outbreak Distribution Map)

Phys Org: 
Ebola and Marburg Viruses May be Much Older Than Thought

JoVE Visualize: Anthrax lethal toxin inhibits translation of hypoxia inducible factor 1? and causes decreased tolerance to hypoxic stress

Geology and Mineral Resources of West Africa - The Archaean Basement

National Academy of Sciences: High-affinity lamprey VLRA and VLRB monoclonal antibodies

Berkeley Lab: Structure of the Ebola Virus Glycoprotein Bound to an Antibody from a Human Survivor

NASA Science News - Earth's Inconsistent Magnetic Field



Monday, November 3, 2014

Evolution of Adaptive Immunity

Two Trees (creative digital image)

I attended a "Weiser Endowed Lecture in Immunology" featuring Dr Max Cooper of the Emory University School of Medicine, speaking on "Evolution of adaptive immunity" at the University of Washington in 2012.  Dr Cooper's work is foundational in this subject area.

It is interesting that immunity systems follow a phylogenetic pathway much as the phylogeny of species themselves do. The evolutionary pathway of jawless vertebrates (of whom hagfish and lampreys are surviving members), possess differences in comparison to the common evolutionary pathway followed by other vertebrates.

Lampreys and hagfish do not possess a thymus , nor do they possess a spleen.    Lampreys and hagfish do not possess Major Histocompatibility Complex (MHC) 1 or 2, T-cell receptors or recombination activating genes (RAG 1 and 2) which play an active role in the recombination of T-cell and immunoglobulin  receptors. Lampreys and hagfish posses hematopoietic tissue, the former in the intestine and the latter in the portal vein.  With these changes, the lampreys and hagfish diverged off the common immune system evolutionary pathway prior to the development of certain MHC class immunity in other species.  This is an important benchmark due to the major role that the MHC class plays in vertebrates.  It is a vital aspect which makes the concept of a separate phylogenetic pathway earmarked for the immune system so interesting.  If lampreys do not possess a thymus, then what substitutes in its place?

Lampreys and hagfish utilize a system of leucine-rich repeats )(LRR's) to mediate immune system responses using Variable Lymphocyte Receptor (VLRs), (VLRA's, VLRB's and VLRC's).  The interesting aspect of the jawless vertebrate immune system function is comparing its action in structure and function to the immune systems we are familiar with.  VLRB's have structures similar to toll like receptors (proteins that play a key role in the innate immune system), while their functions are similar to those of antibodies,  and they possess humoral characteristics (using macromolecules in extracellular fluids in immunity systems). They act using discrete populations of lymphocytes (types of white blood cells) .

VLRBs act as an adaptive immune system and can differentiate foreign from self in recognizing lymphocytes.

Lampreys posses a diverse variety of leucine-rich repeats which code for germline and mature genes. They possess a specificity for carbohydrate and protein receptors on bacterial and mammalian cells. They bind antigens with high avidity and affinity, describing the binding capacity of multiple versus single interactions of antibodies with antigenic epitopes.

 In "Evolutionary implications of a third lymphocyte lineage in lamprey", the authors find a thymoid source for VLRA and VLRC assembly in the lamprey gill tips, while VLRB assembly occurs in hematopoietic typhosole and kidney tissues.  VLRC appeared more numerous than VLRA, and predominated in the skin.  They conclude that a similar body plan of two T-cell type lymphocytes in a thymoid type structure and one B-cell type lymphocyte in the blood and kidneys shows some similarity in basic structure to the immune system for jawed vertebrate, while achieving adaptive immunity through different means.

Monclonal VLRB antibodies  from immunized lamprey larvae can recognize plasma cells from myeloma patients.  VLR4, a monoclonal VLRB specific for BclA, the bacillus collagen-like protein, has shown to be specific for B. Anthracis spores.  Information on B. Anthracis can be obtained from the US Centers for Disease Control (CDC) CDC - Anthrax and the World Health Organization (WHO) WHO - Anthrax.

Research indicates a number of applications where VLR's can recognize certain immumogens  An immunogen is any antigen that is capable of inducing humoral and/or cell-mediated immune response rather than immunological tolerance.  These applications include diagnosis, research and bioterrorism investigations.


Monday, October 27, 2014

PANSPERMIA and EVOLUTION


Mars Spirit Lander and Bonneville Crater in Color
 Image Credit: NASA/JPL-Caltech/Univ. of Arizona 

Panspermia  is a concept which portrays how life might be distributed throughout the universe.  These means include a wide variety of astronomical or celestrial objects  including meteors, comets, asteroids, and factors such as the solar wind.  The theory of panspermia, however does not really address how life began in the first place.

As man has ventured out into space, with human space travel, or has used unmanned spaceflight, the issue of man (or machine) as a vector or agent of panspermia has become an issue.  This issue parallels the concept of jet travel and airports as a vector in spreading contagion. Migratory birds have been vectors for centuries, landing in Qinghai Lake, China, a saline and alkaline lake and migratory crossroads  or in the Izembek National Wildlife Refuge in Alaska, along the Bering Sea. . Such bird migratory pathways provide fertile ground for recombination and spread of various contagions.

The NASA photo of the Bonneville Crater and Mars Spirit Lander depicts an impact crater on Mars.  Such an impact would have created a large amount of energy upon impact.  Many theories of life involve the discussion of how reorganization and complexity arises as energy is input into a system.  The Miller and Urey experiment in 1953 attempted to address this issue through recreation of a primordial atmosphere laced with water, methane and lightning storms.
 
Henry Eyring, a chemist, discovered Actual Rate Theory or Transition State Theory, which discusses reaction rates of chemicals in the context of potential energy states, complexes activated by chemical reactions, entropy considerations and products formed by the chemical reaction. In considering the input of exogenous energy into a system, this theory would be important in examining the potential reactions that might take place, as the reaction may change the system through transformational change.

In considering the issue of panspermia, therefore, there are a couple of issues; the development of a system and then the spread of that system.  Issues of energy and mixing concern the development or the boot-strapping of a system through transformational change, while panspermia addresses the spread.  Where panspermia occurs through media that spread via impact, the two issues (bootstrapping and spread) tend to co-exist to some extent.

The concept of panspermia requires a vector that is resilient.  It must be able to adapt to environmental factors such as extremes of temperature, must be able to resist impact as well as radiation and other factors such as high levels of salinity.   Such organisms, extremophiles  fit a profile as a candidate for panspermia.


Santa Catalina Mountains seen from Saguaro National Park, Arizona

Recently, I came across an article in Applied and Environmental Microbiology (AEM) on Bacillus Endospores,  written by Patricia Fajardo-Cavazos and Wayne Nicholson, "Bacillus Endospores Isolated from Granite: Close Molecular Relationships to Globally Distributed Bacillus spp. from Endolithic and Extreme Environments".   This article discusses the issue of the diversity of Bacillus spp. populations, and specifically certain endolithic spore populations obtained from near surface granite from the Santa Catalina mountains near Tucson, Arizona.

An endospore is a tough non-reproductive surface that lies dormant for an extended period of time, and can be later revived after many years to a vegetative state.

Anthrax is a bacillus, and may exist in the dormant state as an endospore.  According to a World Health Organization document on studies of anthrax endospores (bacillus anthracis),  "Sporulation requires the presence of free oxygen. In the natural situation, this means the vegetative cycles occur within the low oxygen environment of the infected host and, within the host, the organism is exclusively in the vegetative form. Once outside the host, sporulation commences upon exposure to the air and the spore forms are essentially the exclusive phase in the environment."  Spores are thus spread by release of spores by the dying host into the environment where they are taken up by another animal.

 The focus of the AEM article is on the very issue of panspermia, the issue of transference of microbes through spaceflight, It concerns the measurement of characteristics of various endolithic spore populations obtained through a variety of near surface granites and basalts and even the ultra clean environments of spacecraft assembly facilities.

Blue fluorescence obtained through medium wavelength UV illumination, distinguished certain endospores obtained from near surface granites.  Endospores were grouped into species or strains based on their rRNA  gene sequences. Numbers and diversity of endospores from granite were greater than those obtained from basalts.  This may be due to the lower porosity of basalt versus granite. Limited subsets of Bacillus spp. appeared to occur in certain rock environments that favored them and not other strains. Certain bacillus strains (bacillus subtilis) were used as proxies for bacillus anthracis fluorescence properties in the study.

The issue of panspermia is a very important one, set in the context of space exploration and in consideration of how extraterrestrial impacts may have impacted (and may still be impacting) human life.  The AEM study provides interesting results as to the diversity and characteristics of Bacillus spp. from a variety of environments, including, importantly, granite, set in the context of fluorescence properties.   A bacillus such as anthrax, as studied by the World Health Organization (WHO) or the CDC may provide clues as to how bacillus and endospores fit into our evolutionary framework.