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Author Topic:   Did viruses precede other life?
SUnderwood
Inactive Member


Message 6 of 32 (111165)
05-28-2004 2:27 PM
Reply to: Message 5 by Ooook!
05-08-2004 5:04 AM


Viruses came first
If we continue our Victorian line of thinking in categories, then you'll probably conclude that viruses did indeed come first.
If, by life, we mean cell creatures, viruses being much smaller chunks of "life's" main code - cheifly RNA/DNA - must have been in existance befor our little cell friends even "come into existance".
After this "event", you would be correct to think that viruses actually come from celled creatures; being breakaway strands of RNA that slip through the cell walls and out into the great wide world.
What I find interesting about viruses is that you only know you've got one, when your body doesn't like it - you get a cold, or flu, or worse.
But what of those little blighters that DON'T raise an rash, not a hair! What of those genes/DNA/RNA being transfered b/w GM crops to non GM crops, or brought into our bodies through digestion and into our cells?
Some call this horizontal transfer. Other might call it evolution.
Sean

This message is a reply to:
 Message 5 by Ooook!, posted 05-08-2004 5:04 AM Ooook! has not replied

Replies to this message:
 Message 8 by RAZD, posted 05-29-2004 1:53 AM SUnderwood has replied

  
SUnderwood
Inactive Member


Message 9 of 32 (112672)
06-03-2004 4:32 PM
Reply to: Message 8 by RAZD
05-29-2004 1:53 AM


Re: Viruses came first
Bascially, yes, horizontal transfer of genetic information by viruses is the major driving force behind speciation/"evolution".
Although viruses are seen as a pest, they are genetic mechanisms; so a virus is a carrier of genetic information. When they assimilate with host DNA (as we see with HGT in GM foods) they have "evolved" the host. They have inserted their "viral-gene" into the host.
But, an "evolved" host doesn't mean a gene-expressing host.
The virus could lay dormant for many generations before activator genes (situated in highly volitile/sensitive regions of DNA) accidently trigger our new viral-gene. When that happens we have two outcomes 1)Death of the organism because of the viral-gene's effect, 2) successful assimilation with host's machinery (and possible benefits that could bring).
So, we have two types of "evolution" going on. 1) a sort of genetic macro-evolution with HGT, and 2) a genetic micro-evolution, with activator genes expressing the viral gene.
Speciation, you would then understand, would be a mixture of new viral code insertion and/or the *loss* of genetic code, and adjustments to gene activation by activator regions.
"Survival of the fittest" would then decide which organism used their normal and viral genes to the most effective outcome (greater multiplication, more resistance, longevity etc you know what i mean).
Sean

This message is a reply to:
 Message 8 by RAZD, posted 05-29-2004 1:53 AM RAZD has replied

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 Message 10 by RAZD, posted 06-04-2004 10:04 PM SUnderwood has not replied
 Message 14 by extremophile, posted 09-28-2004 10:52 PM SUnderwood has replied

  
SUnderwood
Inactive Member


Message 16 of 32 (145688)
09-29-2004 2:10 PM
Reply to: Message 14 by extremophile
09-28-2004 10:52 PM


Re: horizontal gene transfer
Look, for God sake if you don't understand what I'm saying read the damned website! The major issue here is your "belief" that micro-evolution by genetic allel mutation actually provides real beneficial change to the genetic structure. IT DOESN'T! Genetic faults are VERY RARE!! Yes, you see organisms with problems, (i.e. sickle cell) but consider how many hundreds of billions of cells YOU are made out of, and each person is made out of, if so-called micro-evolution had any MAJOR effect on the genetic code, it would be obvious! Cells within us would have different genetic code!
Get out of the dogmatic BOX! Read the website, at least read the Whats New section to see the gradual build up of evidence. You are an intelligent person, i can see that, but don't let yourself be trapped. The only way out is to read. You've said yourself before you haven't read much about it. Read about it and come back.
I have to say its very interesting talk to you because you make me think.
quote:
Doesn't seems to me that this genetic macro evolution by HGT would have a different effect phenotypically than normal mechanisms of genetic-microevolution
HGT transfers WHOLE WORKING GENES! WHOLE PROTEINS! Whole TOOLS that the cell can use. Micro-evolution provides single allel mutations, that will invariably destroy protein effectiveness (i.e. sickle cell) and the probably the organism, if it ever gets past gestation.
quote:
since the activation of a H-acquired gene would depends of a regular mutation, which could "hit" any non-expressed gene that came to existance by mutation too
1st u've made an assumption that muation occurs only on non-expressed portions of the genome. Thats wrong. When it does happen it will happen more likely to expressed "working" regions.
However, you've made me think a little. I would reply this:
Again, random mutation is VERY RARE! The repair mechanism of cells are extremely efficient. You will notice that genetisists say there are regulator regions which change more frequently. Those areas of the genomes which ARE frequently altered via "mutation" seem to be under directed alteration by the genome itself. As yet I haven't come across a piece of research that documents the genetic alteration of a genome by "self-mutation" (except for the rearrangement of genes in general) but I think thats because no-one is looking for it.
quote:
I don't understand much of this
Look, please, following this link and read just this one page.
Interesting links on it are
* More about photosynthesis by gene transfer
* Gene transfer among eukaryotes
* Halobacteria can repair badly damaged DNA
* More animal genes came from bacteria
* Microbes have stolen some of our genes!
And more.
What'sNEW in Cosmic Ancestry. by Brig Klyce
Panspermia is a beautiful theory. And if you're interesting in quantum physics and organic systems, its even more amazing theory than the pure genetics side can "see".
Sean

This message is a reply to:
 Message 14 by extremophile, posted 09-28-2004 10:52 PM extremophile has replied

Replies to this message:
 Message 18 by crashfrog, posted 09-29-2004 2:25 PM SUnderwood has replied
 Message 26 by extremophile, posted 09-29-2004 10:23 PM SUnderwood has not replied

  
SUnderwood
Inactive Member


Message 17 of 32 (145691)
09-29-2004 2:24 PM
Reply to: Message 13 by Ooook!
07-02-2004 5:43 AM


Hi ooook
Here is some evidenace from What'sNEW in Cosmic Ancestry. by Brig Klyce
Gene transfer among eukaryotes Two independent studies show that there have been horizontal gene transfers between parasites and their vertebrate or plant hosts. "The huge significance of horizontal gene transfer for the evolution of prokaryotes has been known for a long time, as has the large contribution that intracellular endosymbiont ancestors of mitochondria and chloroplasts have made to eukaryotic genomes.... Studies such as these show that ongoing horizontal gene transfer from a range of parasites and endosymbionts might be more important for eukaryotic evolution than we previously realized just how important remains to be seen."
Nick Campbell, "Genome Evolution: Give and take" [article], p 638-639 v 5, Nature Reviews Genetics, Sep 2004.
Nature - Not Found
More about photosynthesis by gene transfer. In 2002, geneticists Raymond, Zhaxybayeva et al. used whole genome comparisons to conclude that photosynthesis in five groups of prokaryotes was acquired by gene transfer. In 2003, biologists at the University of Warwick found photosynthesis genes in a virus, S-PM2. Now, a team of biologists from Boston and San Diego "report the presence of genes central to oxygenic photosynthesis in the genomes of three phages from two [other] viral families...." The abstract of their writeup mildly concludes, "These gene transfers are likely to play a role in the fitness landscape of hosts and phages in the surface oceans." We note that evidence supporting gene transfer as the source for new genetic programs continues to accumulate. Meanwhile, evidence supporting a darwinian mechanism as the source for new genetic programs is lacking.
Debbie Lindell et al., "Transfer of photosynthesis genes to and from Prochlorococcus viruses" [abstract], p 11013-11018 v 101, Proc. Natl. Acad. Sci. USA, 27 July 2004.
Just a moment...
More animal genes came from bacteria. According to a report coming in the July 2004 issue of Trends in Genetics, genes for enzymes involved in the manufacture of important chemical messengers were transferred from bacteria to animals, perhaps half a billion years ago. The genes are essential for animal functions including learning, memory, mental alertness, sleep patterns, and allergic responses. NIH's website reports:
"For the study, the researchers conducted a comprehensive search of the National Library of Medicine's genetic databases. They identified a group of genes needed to make some enzymes involved in the manufacture of the chemical messengers that cells use to communicate. The genes are present in bacteria and in vertebrate animals, but with a few exceptions, not in plants, or other complex living organisms. The search was prompted by the group's earlier observation that [another] enzyme ...was present in animals, bacteria, and yeast, but in no other living organisms.
"It is not known how the genes were transferred, but [one member of the research team, David] Klein, theorizes that one form of transfer took place during the reproductive cycle, with the genes having been incorporated into either sperm or egg cells or incorporated shortly after fertilization. It's possible that the transfer could also represent a form of infection where genetic material is transferred into these reproductive cells and thereby into the entire genome of the recipient."
According to our reasoning, wholly new genetic programs must be acquired by gene transfer. The new report from NIH adds to the growing list of apparent examples of this process. Examples documenting the darwinian creation of new genetic programs remain few in number and very weak. [Thanks, Newshub.]
Genes Promoting Nerve, Other Cell Communications May Have Come From Bacteria, National Institutes of Health (NIH), 1 June 2004.
Request Rejected
Genes Promoting Nerve, Other Cell Communications May Have Come From Bacteria, ScienceDaily.com, 3 June 2004.
http://www.sciencedaily.com/...ases/2004/06/040603063920.htm
Viruses old as life? When virologists analyzed a hyperthermophilic virus from an archaeal host living in a Yellowstone hot spring, they found "astounding" conformational relationships linking it to known viruses of bacteria and animals. They conclude, "some viruses may have a common ancestor that precedes the division into three domains of life > 3 billion years ago."
George Rice et al., "The structure of a thermophilic archaeal virus shows a double-stranded DNA viral capsid type that spans all domains of life" [abstract], Proc. Natl. Acad. Sci. USA online, 3 May 2004.
http://www.pnas.org/cgi/content/abstract/0401773101v1
Organelles transfer genes, wholesale, to eukaryotes, an international team of biologists based in Australia reports. This mechanism is yet another way for gene transfer to install genetic programs into eukaryotic species. Among the team's findings
"Genome sequences reveal that a deluge of DNA from organelles has constantly been bombarding the nucleus since the origin of organelles.... at frequencies that were previously unimaginable.
"Phylogenetic analyses and genome comparisons show that influx of organellar DNA to the nucleus has had a marked quantitative impact on the gene content of eukaryotic chromosomes.
"Translocated genes might be expressed to provide products that are targeted to all parts of the cell.
"This mechanism of natural variation is unique to eukaryotic cells and was an important force in the genesis of eukaryotic genomes."
Jeremy N. Timmis, Michael A. Ayliffe, Chun Y. Huang and William Martin, "Endosymbiotic Gene Transfer: Organelle Genomes Forge Eukaryotic Chromosomes" [abstract], p 123-135 v 5 n 2, Nature Reviews Genetics, Feb 2004.
Nature - Not Found

This message is a reply to:
 Message 13 by Ooook!, posted 07-02-2004 5:43 AM Ooook! has replied

Replies to this message:
 Message 27 by Ooook!, posted 09-30-2004 8:44 AM SUnderwood has not replied

  
SUnderwood
Inactive Member


Message 19 of 32 (145694)
09-29-2004 2:31 PM
Reply to: Message 18 by crashfrog
09-29-2004 2:25 PM


Read a little more. I'm saying that genetic allel mutation occur very rarely.

This message is a reply to:
 Message 18 by crashfrog, posted 09-29-2004 2:25 PM crashfrog has replied

Replies to this message:
 Message 20 by crashfrog, posted 09-29-2004 2:50 PM SUnderwood has replied

  
SUnderwood
Inactive Member


Message 21 of 32 (145707)
09-29-2004 2:57 PM
Reply to: Message 20 by crashfrog
09-29-2004 2:50 PM


No, allel mutation is not cupious. A lot of mixing occurs due to fertilisation, but mutation of allels does not occur often. Don't get the two confused.
And you can't talk about over the lifetime of a population. thats doesn't make sense. Of a species, well, yes, mutation of allels does occur quite often over millions of years or so, and most die because of it, so are a hinderance to evolution (or a benefit, as that mutation was deleted and not passed on).
This message has been edited by SUnderwood, 09-29-2004 02:04 PM

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 Message 20 by crashfrog, posted 09-29-2004 2:50 PM crashfrog has replied

Replies to this message:
 Message 22 by crashfrog, posted 09-29-2004 3:04 PM SUnderwood has replied

  
SUnderwood
Inactive Member


Message 24 of 32 (145736)
09-29-2004 4:13 PM
Reply to: Message 22 by crashfrog
09-29-2004 3:04 PM


I take your point. Synonymous substitutions is more frequent than I had thought. But codon substitutions is still deleterious. The paper to which you refer is interesting in its conclusions, that amino acid substitution is deleterious, whilst nucleotide subsitution (depending on its synonymity) is not, necesarily. My apologies, I have mixed up the codons and allels. Thank you very much for the reference.
The paper referenced does howver provides support to the argument, that evolution, at the protein level, is a rare event, and that nucleotide mutation (and so codon change) is usually damaging. HGT, then, is still a major source of genetic information.
BTW, did u read the list of references which I posted?

This message is a reply to:
 Message 22 by crashfrog, posted 09-29-2004 3:04 PM crashfrog has replied

Replies to this message:
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