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Posts posted by jimmydasaint

  1. Interesting find. I did not believe it at first but then read these quotes:


    he researchers’ setup resembled the French team’s, but an attached microscope allowed them to track the bacteria’s behavior. Sure enough, when the E. coli cocktail reached 10 to 20 percent bacteria by volume, swirls formed. As bacteria plowed through the water, which feels honey-thick at their microscopic scale, they produced shockwaves that buffeted their companions both near and far.

    “It’s a bit like if you have a lot of stars in a galaxy and they can affect each other,” Dunkel said. Those forces encouraged local groups of swimming E. coli to align their pill-shaped bodies.

    Then the motion of the plates makes that local behavior global. Dragging the top plate sends shearing forces rippling through the fluid, which in effect organize and orient the swarms.

    “Without shear, the direction of swarming is random,” Cheng said. “Under shear, you get the tendency to have all the bacteria lining up in certain directions.”

    Once the influence of the plates helps the bacteria settle into an average alignment, their swimming pushes on the water and generates local flows that transform the solution’s large-scale properties.


    There is also a model stated here:


    As for having a motor driven by bacteria, that need warmth and a continuous flow of suitable nutrients - dream on!

  2. First of all, it is no surprise that computer scientists would consider DNA as an excellent information store.  Treated correctly, DNA can be frozen and kept for potentially hundreds of years if I believe the magazine article which I scanned very quickly today. Also, there are 2 billion base pairs in the entire chromosomal content of one cell nucleus which are responsible for the encoding of roughly 21,000 genes to make a human being IIRC.

    However, here is the bit where I need help. The article claimed that 9 base oligonucleotides could be used to code for short instructions and that 13 of these 9 base oligonucleotides could encode 13 trillion "words" of code (in the same way that sentences could be broken into words). 

    I am assuming that I read this correctly.

    Not knowing coding, can someone clarify:

    a) What it means by words of code and

    b) What technique would allow this code to be read quickly enough for practical purposes?

    In the meantime, I will hunt for the original article...

  3. 2 minutes ago, CharonY said:

    A lot (most) of mitochondrial (and plastid) DNA has been incorporated into the the host genome, though the extent can vary between different groups of organisms. Many of functions for replication are typically transferred to the host, though a few may still be retained. Typically the mitochondrial genomes lack the complete set of  genes required for independent replication. There are several models and evidence of DNA transfer during the early phases of organelle origins. After establishing the core functions of organelles the rise of protein import/export functions have slowed down the transfer of the rest.

    Is there a particular model which is more plausible than others about the movement of DNA from the organelle to the nuclear chromosomes? I am making an assumption here that the genes for mitochondrial replication are spread amongst several chromosomes as a "buffer" to avoid deleterious mutations, but I could be corrected...

  4. These are questions where I have struggled to find answers.

    How did instinct arise?

    How did it become "embedded" in species of animals?

    Are the changes epigenetic and passed on in subtle base modifications (e.g. methylation)?

    Do instincts change?

    The Great  monarch butterfly seems to use the sun to guide itself huge distances.  I wonder if the amount of sunlight is a cue that then allows instinct to fly to "kick in"?


    We identified that the input cues depend entirely on the Sun,” explained Prof Shlizerman.

    “One is the horizontal position of the Sun and the other is keeping the time of day.

    “This gives [the insects] an internal Sun compass for travelling southerly throughout the day.”

    Great monarch butterfly

  5. There are two papers - one on bats, including wild bats in an uncontrolled but closely observed environment. The other is on tracking wild tiger movements in habitats fragmented by humans. These are looking at end behaviours which are measurable and provide evidence.  How could you provide evidence for any behaviour which is not measurable? It would not be considered evidence by you! Evidence is only provided on the end results of behaviours surely!

  6. All behaviour is human behaviour? I am now worried! Did you read the two pieces of evidence that were presented by me, including the figures? I would certainly read them prior to such erroneous and hasty posting.  Do you know that circadian rhythms in mammals are controlled in the same way as humans and that melatonin is similarly involved.  Did you know that oxytocin receptors in some mammals determine nurturing behaviour of the young, which may be similar to humans? (I don't know if papers are out about this phenomenon in humans).

    I gave you evidence = please take time to read and consider it.  All behaviour is not human behaviour and we certainly get a lot of clues about human behaviour from animal studies (e.g. Pavlov's dogs).

    Oh, and Science is about theory/hypothesis followed by observation and analysis. Falsification is a method for reaching objective truths; hence the carefully couched language of most scientific papers.

  7. I see A meta-analysis is an overall view based on other analyses by other researchers.  This marks a review of trends about "nocturnality".

    The original paper can be share here:



    Rapid expansion of human activity has driven well-documented shifts in the spatial distribution of wildlife, but the cumulative effect of human disturbance on the temporal dynamics of animals has not been quantified. We examined anthropogenic effects on mammal diel activity patterns, conducting a meta-analysis of 76 studies of 62 species from six continents. Our global study revealed a strong effect of humans on daily patterns of wildlife activity. Animals increased their nocturnality by an average factor of 1.36 in response to human disturbance. This finding was consistent across continents, habitats, taxa, and human activities. As the global human footprint expands, temporal avoidance of humans may facilitate human-wildlife coexistence. However, such responses can result in marked shifts away from natural patterns of activity, with consequences for fitness, population persistence, community interactions, and evolution.


    Also, because you want evidence, there is evidence of bat behaviour being affected by streetlight illumination, here:



    Artificial light puts ecosystem services of frugivorous bats at risk

    First published: 10 March 2014


    If you go straight to the figures, you will see a very clear change in behaviour when streetlight illumination is in force.

    Also, there is evidence of humans affecting tiger populations by their living processes including farming:


    The 21st century has brought many conservation challenges to the fore. One very important and significant challenge that has evoked considerable scientific interest is the fragmentation of wildlife habitat. With rapidly expanding human populations and other competing land uses, areas that used to be continuous habitat have become broken and fragmented, isolating plant and animal populations contained within them. Habitat fragmentation is usually a time driven process that is innocuously initiated by human habitation or man induced habitat alteration and which eventually accelerates and results in complete isolation of once contiguous habitat. Populations thus isolated face survival pressures through increased competition for food and space and obligated risks in relation to disease outbreaks and episodic calamities such as fire and flood. Over a larger time span, species inhabiting isolated habitats also face the risk of extinction through mechanisms such as excessive inbreeding [1], [2].

    The evidence is presented about six key factors which affected tiger movement (e.g. perennial water bodies) and then presented observations and analyses about each one.  You can find the paper here:


    They did not look at some tiger poo and make analytical statements: they performed the field work.

  8. 9 hours ago, T. McGrath said:

    First you have to have actual evidence.  All they have are supposition and conjecture, and they know it.  Which is why their so-called conclusions begins with "seems to..."  This is nothing more than anthropomorphism, attempting to impose human characteristics and behaviors into animals they observe.  It is total BS.

    Wow! What a remarkably obtuse answer!

    From a quick glance, this looks like a meta-analysis of 76 published studies (all of which are likely to have been peer-reviewed). The opinion reached by at maximum 76 teams of researchers who use the scientific method are likely to be better than you sitting at your computer and trying to rubbish their work. Don't talk complete garbage.  Also, if you are a troll, you are likely to get caught early with your stubborn and near-sighted nonsense.


    Researchers analysed 76 published studies that monitored the activity of 62 mammal species, including some that are mostly nocturnal by nature, on 6 continents. They compared the night-time activity of each species during periods of time or in regions with high human disturbance, such as during hunting season or in areas rife with roads, with their night-time activity during periods of time or in regions with low human disturbance. The findings1, published on 14 June in Science, show that most mammals become on average 20% more active at night in response to higher levels of human disturbance.


  9. Mathgeek, I plagiarised your post here:


    If contacting the publisher of the work containing the plagiarism is unsatisfactory, I would contact the author(s) and publisher of the original work that was plagiarized.  I would also give ample public notice in forums like this one and possibly others.  Errors in scholarship (including plagiarism) should be brought to the attention of a wide audience.

    Just to agree with what you have written.  Also, it may be possible that authors who are not expert in English would be more willing to plagiarise because they might not have the range of semantic and syntactic skills to enable them to rephrase a paragraph which appears to be perfectly written from their viewpoint.  In short, help should be available to rephrase a scientific statement for people who are imperfect in written English skills (I include myself in this description due to this repetitive and word-heavy paragraph which I have just written).


  10. I don't know about the Big Bang as an act of faith.  I thought the theory had pretty strong evidential basis. Big Bang evidence As a first cause, it is pretty good. And yes I base my faith on my own train of logic and inference which is my own personal opinion based on my own reasoning.  I do not expect others to follow my reasoning.  Like I said, I am not here to bang on a religious book - I am sharing my thoughts and opinions. If there is evidence of consciousness/soul  after death then it would back my thoughts further.

  11. Sure. hope you are keeping well mate.  All three Revelations talk about something called the soul which has a relationship with the corporeal part of existence.  By its own deeds, it either elevates itself to a higher plane (Heaven) or a lower form of existence (Hell).  We are also causative agents (apart from the Supreme Intelligence which caused the Big Bang) and our actions on Earth have consequences - to improve or degrade the standard of life of others.  Those who give of their wealth, or time, generously raise society (and their own soul)  whilst those who hoard their money and are filled with the ego of power (e.g. Pharaoh) destroy or corrupt society (and their own soul).  The Revelations gave their guidance in the form of metaphor and allegory.  I am not quoting these directly, it would take too long unless you want me to elaborate further?

  12. Just to reply to the OP.  I believe in a Supreme Intelligence, call it what you will. I approach my thinking from the cause and effect relationships evident throughout the Universe.  Then, I attribute the Big Bang and all subsequent events to this Supreme Intelligence that could conceivably create the forces of nature and allow the potentialities of the Universe to manifest. At some point in my chain of thinking, I come across question marks and I have doubts about the existence of this Supreme Intelligence.  At this point, I need faith to believe that there is an afterlife where the elevated soul can rest after the excrescence of an Earthly existence.  That faith is a strong hope underpinned by not one but 3 revelations and books that seem to give broadly the same message. However, all the above is my opinion, which I believe was requested by the OP. I am not here to bang the drum.

  13. Quote

     In some cases they are large enough to be considered microtubes rather than nanotubes, and some researchers believe that the smaller TNTs are functionally different from microtubes. Efforts are ongoing to characterize the different subtypes of nano- and microtubes.....

    Frank Winkler, a neurologist, oncologist and cancer researcher at the University of Heidelberg, discovered that the brain cancers called gliomas are full of tumor microtubes (TNTs’ larger cousins). He’d noticed these structures while watching single tumor cells grow in the brains of live mice, but he hadn’t recognized their significance. The pathologist with whom he collaborated had attributed them to defects in the preparation of the specimens. Not until Winkler and the pathologist saw these tiny tubes in living cells did they realize that the structures were real.


    You probably did read about them a decade ago.  IIRC, these were first discovered in 2004. 

  14. These findings need to be confirmed by other labs but are stunning if they are correct. This discovery could provide a low cost solution to many cancers. Will Big Pharma pick upon this or ignore it?


    The team tested the effects of the small interfering RNAs produced by the repeated sequences in human and mouse cancer cells grown from laboratory cell lines.

    They tested them in brain, breast, colon, liver, lung, ovarian, and skin cancer cells. The "assassin molecules" killed all the cancer cells from both human and mouse cell lines.

    They also tested the molecules' effects on live mice with human ovarian cancer. The molecules were delivered in nanoparticles that released their cargo when they reached the tumors.


  15. The ancient viruses discovered are a complete game changer in Biology and represent an as-yet uncharacterised influence on oceanic and Earth-based ecosystems.  No-one knew because they did not grow them in the lab properly.  

    Awesome find Moontanman!

  16. First of all, can you get pure samples of each genus?

    If you can get hold of pure samples then you can do some old fashioned protein SDS PAGE made against secreted antigens from each genus.  These are probably few enough so that you end up with a reasonable protein profile.  If you make radiolabelled antibodies against the secreted antigens, you have a fine control of the secreted proteome from each genus.

    Then you can use some fancy reverse genetics to make a DNA probe for each genus and then finally use your chosen method to identify genus/species specific DNA.  I am assuming that there is enough genetic difference to classify the cyanobacteria into distinct criteria.


    Distinct Differences in Repertoires of Low-Molecular-Mass Secreted Antigens of Mycobacterium aviumComplex and Mycobacterium tuberculosis



    Small secreted proteins enable biofilm development in the cyanobacterium Synechococcus elongatus

    15 April 2016
    03 August 2016
    Published online:
    25 August 2016


    Small proteins characterized by a double-glycine (GG) secretion motif, typical of secreted bacterial antibiotics, are encoded by the genomes of diverse cyanobacteria, but their functions have not been investigated to date. Using a biofilm-forming mutant of Synechococcus elongatus PCC 7942 and a mutational approach, we demonstrate the involvement of four small secreted proteins and their GG-secretion motifs in biofilm development. These proteins are denoted EbfG1-4 (enable biofilm formation with a GG-motif). Furthermore, the conserved cysteine of the peptidase domain of the Synpcc7942_1133 gene product (dubbed PteB for peptidase transporter essential for biofilm) is crucial for biofilm development and is required for efficient secretion of the GG-motif containing proteins. 


  17. 4 minutes ago, dimreepr said:

    So is the bible...

    You still don't need God, just the message.


    First of all best wishes for the New Year to you and your loved ones. Of course you are correct in saying that we don't need God to live in harmony. I think many people  would need a perfect archetype or paradigm against which they can measure the evolution of their Ego, Will, Love and Knowledge, so I referred to an absolute embodiment of personality and qualities in the form of God, rather than humanity, often painfully lacking in both.

    My aim was to present a picture of God in a scientific context. I don't know if I succeeded or failed in my efforts.



  18. My own tuppence worth as a believer for about 34 years now.

    Science is a set of techniques which can be used in a hypothesis/falsification/new hypothesis method to find objective truths.

    It is neutral to the existence or absence of God

    The Universe, as we know it, is either infinite or finite.

    If it is infinite then my whole argument falls apart.

    If it is finite, then it had a start.  That start is a hypothesis called The Big Bang.

    Science has given evidence of the existence of a Big Bang -for example, cosmic microwave background, Hubble red shift of galaxies 

    The Laws of physics apparently came into being at the Big Bang and then became pretty much immutable.

    Matter cannot be created or destroyed. God created matter and cannot be then contained or trapped by His Laws.

    Space-time was created by God. The Bible and other revelations spend time telling us what happens at the end of "Earth" time so God has seen all of Time as it passed before Him.

    God's revelations appeared in all three theist religions but as metaphor and allegory not in complete factual detail.  God gave a spark to the start of the Universe and let his revelations and Laws do the rest.  

    God gives meaning and purpose to the lives of billions of people on this planet, including myself.

    If you do not believe or seek a scientific proof for God, it is not there. What would be the point if we have something called free will if a Father like figure showed His presence all the time - it would be restrictive in the extreme.

    But if you are an atheist, I respect your views. 

    I love my belief system because it enables me to live with my Ego, Love, Will and Knowledge in a harmonious manner with other people and the Universe (most of the time, unless they really get irrational when I lose the plot slightly). In short, I have hope for the future if I align my moral compass with the intrinsic qualities and personality of God.  

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