Archives for posts with tag: mutation rates

Deep-ocean microbe is closest living relative of complex cells“A new study indicates that plants, fungi, and animals are descendants of archaea, the group of single-celled organisms that includes Sulfolobus, a resident of hot springs.” – h/t bill barendse! – see also: New Loki Microbe Is Closest Relative To All Complex Life.

A Surprise for Evolution in Giant Tree of Life“Researchers build the world’s largest evolutionary tree and conclude that species arise because of chance mutations — not natural selection…. This controversial proposal stems from efforts by Hedges and collaborators to build the world’s most comprehensive tree of life — a chart plotting the connections among 50,000 species of Earth’s vast menagerie. Their analysis suggests that speciation is essentially random. No matter what the life form — plant or animal, insect or mammal — it takes about 2 million years for a new species to form. Random genetic events, not natural selection, play the main role in speciation.” – see also Was Charles Darwin Wrong About Speciation? from razib.

Genetic changes to basic developmental processes evolve more frequently than thought“Newly evolved genes can rapidly assume control over fundamental functions during early embryonic development. The findings suggest that evolutionary changes to the genetics of fundamental biological processes occur more frequently than previously thought.” – h/t david bachinsky!

The First GMO Is 8,000 Years Old“Scientists find that bacteria modified DNA in sweet potatoes millennia ago.”

Behavioral idiosyncrasy reveals genetic control of phenotypic variability [pdf] – “If we could rear genetically identical individuals from a variety of genetic backgrounds and rear them in the same environment, how much phenotypic variation between individuals of the same genotype would we see? Would different genetic backgrounds differ in their degree of variability? What would account for these differences? We used Drosophila inbred lines to address these questions focusing on variability in locomotor handedness. We show that different genotypes vary dramatically in their propensity for variability, that phenotypic variability itself, as a trait, can be heritable, and that loci affecting variability can be mapped. The genetic control of variability has received little attention in quantitative genetics despite the important role variability plays in explaining phenotypic variation between individuals.”

two tweets from the Biology of Genomes meeting re. a presentation on mutation rates:

Team Characterizing DNA from Ancient Human with Recent Neanderthal Ancestry [registration req.] – see also Ancient DNA from an Upper Paleolithic European with recent Neanderthal ancestry“the male sample, Oase 1, is 37-42K years old and comes from the Pestera cu Oase site in southwestern Romania. it’s estimated to harbor 5-11% of genome-wide Neanderthal ancestry, with as much as 50% on chromosome 12. the admixture is in relatively long stretches, which suggests that the mixture took place four to six generations before Oase 1 was alive. – @the eurogenes blog.

The archaeology, chronology and stratigraphy of Madjedbebe (Malakunanja II): A site in northern Australia with early occupation“The stone artefacts and stratigraphic details support previous claims for human occupation 50–60 ka and show that human occupation during this time differed from later periods.” – h/t chris stringer!

Stone bracelet is oldest ever found in the world“Dating back 40,000 years to the Denisovan species of early humans, new pictures show beauty and craftsmanship of prehistoric jewellery.” – denisovan jewelry!!

The Old Race – from greg cochran.

Ancient DNA Tells a New Human Story“The study of ancient DNA has challenged this view. We now know that mass migrations occurred repeatedly, overwhelming natives while absorbing some of their genes…. Joseph Pickrell of Columbia University and David Reich of Harvard University argue that ‘major upheavals’ of human population have been ‘overwriting’ the genetic history of the past 50,000 years. The result, they say, is that ‘present-day inhabitants of many places in the world are rarely related in a simple manner to the more ancient peoples of the same region.'” – from matt ridley.

2,500-year old Etruscans“All that can be said based on this is that they seem broadly southern European and not particularly Tuscan.” – from dienekes. – h/t anthropology tip!

The time and place of European gene flow into Ashkenazi Jews – @the eurogenes blog.

Symbolic bones and interethnic violence in a frontier zone, northwest Mexico, ca. 500–900 C.E.“Persistent interethnic violence has affected some global regions for centuries…. In the prehispanic Northern Frontier of Mesoamerica, approximately 500–900 C.E., people of different ethnic backgrounds struggled for standing in a shifting sociopolitical landscape. Evidence is consistent with long-term social violence….” – h/t gaetan burgio!

London Conference on Intelligence 2015 Keynote – from dr. james thompson.

NIH bans funding for genetic engineering of human embryos – (>.<)

Three hundred years of low non-paternity in a human population“Here we use this approach to investigate 1273 conceptions over a period of 330 years in 23 families of the Afrikaner population in South Africa. We use haplotype frequency and diversity and coalescent simulations to show that the male population did not undergo a severe bottleneck and that paternity exclusion rates are high for this population. The rate of cuckoldry in this Western population was 0.9% (95% confidence interval 0.4–1.5%), and we argue that given the current data on historical populations we have to conclude that, at least for Western human populations, cuckoldry rate is probably in the range of 1%.” – h/t debbie kennett!

Genius and autism may share genetic link, study finds“Child prodigies and their autistic family members may share a genetic link, according to findings published online for the April issue of Human Heredity.”

Immediate susceptibility to visual illusions after sight onset – h/t laura kelley!

The glass is half full *and* half empty: A population-representative twin study testing if optimism and pessimism are distinct systems“Here, we addressed these questions in a genetically informative sample of 852 pairs of twins. Distinct genetic influences on optimism and pessimism were found. Significant family-level environment effects also emerged, accounting for much of the negative relationship between optimism and pessimism, as well as a link to neuroticism. A general positive genetics factor exerted significant links among both personality and life-orientation traits. Both optimism bias and pessimism also showed genetic variance distinct from all effects of personality and from each other.” – h/t stuart ritchie!

Stanford researchers observe the moment when a mind is changed

Nature or nurture? Are sporting champions born to win? – h/t razib!

Menstrual Cycle Phase Does Not Predict Political Conservatism

Heritability of decisions and outcomes of public goods games

The kind of student you were in elementary school predicts mortality – h/t timothy bates!

The Mask of Sanity Revisited: Psychopathic Traits and Affective Mimicry – h/t claire lehmann! who tweeted: “People with psychopathy can produce highly convincing but fake expressions of feelings.”

Polygyny without wealth: popularity in gift games predicts polygyny in BaYaka Pygmies – h/t steve stewart williams!

The kin selection argument continues, with those denying its importance holding firm. They’re wrong. – from jerry coyne.

Behaviorism and the revival of antiracism – from peter frost.

Heterogeneity of long-history migration explains cultural differences in reports of emotional expressivity and the functions of smiles – hmmmm. really? – see also: What your smile says about where you’re from“If you come from a country of immigrants, you’re more likely to crack a friendly smile on the street. That’s the conclusion of a new study, which may explain why Americans beam more than their Chinese and Russian counterparts.”

Is reading to your kids “unfairly disadvantaging” others? – hahahahahaha! – h/t brian boutwell! who tweeted: “The nonsense that you can believe when you’re convinced that genes don’t matter.” – see also Is having a loving family an unfair advantage?

How uncommon is tickertaping? Prevalence and characteristics of seeing the words you hear – h/t kevin mitchell!

Peter Visscher: Genomics, Big Data, Medicine, and Complex Traits – @steve hsu’s.

Memes are Genes – from evolution theorist. (where do memes come from?) – h/t jayman!

How can our future Mars colonies be free of sexism and racism? – (>.<) #virtuesignalling – h/t ed west!

Paternity Case for a New Jersey Mother of Twins Bears Unexpected Results: Two Fathers – ruh roh!

After Nearly Claiming His Life, Ebola Lurked in a Doctor’s Eye“Before he contracted Ebola, Dr. Ian Crozier had two blue eyes. After he was told he was cured of the disease, his left eye turned green [temporarily].” – whoa.

How music evolves“Statistical analysis of music reveals the truth about its periods of revolution.” – h/t argumatronic!

The Medieval Roots of Our DIY Gun Culture“Forget 3-D printers. The first garage gunsmiths date back to the late Middle Ages.”

When Baltimore Shook With Anger, Here’s What China Saw“Online reaction revealed much about Chinese tension with an influx of African immigrants.” – h/t holtz!

No, there’s no “hate speech” exception to the First Amendment – duh. – from eugene volokh.

bonus: The migration of the eagle hunters – awesome!

(note: comments do not require an email. kazakh eagle hunter!)


The genetics of Mexico recapitulates Native American substructure and affects biomedical traits“We studied genomic variation within Mexico from over 1000 individuals representing 20 indigenous and 11 mestizo populations. We found striking genetic stratification among indigenous populations within Mexico at varying degrees of geographic isolation. Some groups were as differentiated as Europeans are from East Asians. Pre-Columbian genetic substructure is recapitulated in the indigenous ancestry of admixed mestizo individuals across the country. Furthermore, two independently phenotyped cohorts of Mexicans and Mexican Americans showed a significant association between subcontinental ancestry and lung function. Thus, accounting for fine-scale ancestry patterns is critical for medical and population genetic studies within Mexico, in Mexican-descent populations, and likely in many other populations worldwide.” – see also: People from Mexico show stunning amount of genetic diversity“When the team analyzed the genomes of 511 indigenous individuals from all over Mexico, they found a striking amount of genetic diversity. The most divergent indigenous groups in Mexico are as different from each other as Europeans are from East Asians, they report online today in Science. This diversity maps onto the geography of Mexico itself. The farther away ethnic groups live from each other, the more different their genomes turn out to be…. But most people in Mexico or of Mexican descent these days are not indigenous but rather mestizo, meaning they have a mixture of indigenous, European, and African ancestry. Do their genomes also vary by what region of Mexico they come from, or has all that local variation been smoothed out by centuries of different groups meeting, mixing, and having babies? To answer that question, the team collaborated with Mexico’s National Institute of Genomic Medicine, which has been collecting genetic data from mestizos for many years. Somewhat surprisingly, they found that mestizos in a given part of Mexico tended to have the same ‘rare’ genetic variants as their indigenous neighbors. The mestizo genomes ‘track so well with the indigenous groups that we could use the genetic diversity in mestizos to make inferences about [their native] ancestors,’ Pasaniuc says.”

Neanderthal-Human Skulls Shed Light on Evolution“Skulls found in a Spanish cave exhibit both Neanderthal and primitive human features, according to a new study published in the journal Science. The discovery provides clues about when the common ancestor of modern humans and Neanderthals lived, what happened after the two groups diverged, and how the two became so different over a relatively short period of time. There is consensus about the ending of the story: Modern humans and Neanderthals interbred, and Neanderthal DNA is still present in people of European and Asian ancestry. But the thousands of years before they connected, however, have been a mystery.” – see also: Palaeontology: How Neanderthals evolved“A study reveals that not all distinguishing features of hominid skulls have evolved at the same pace.”

Oldest human faeces show Neanderthals ate vegetables – eat your veggies!

Searching for Answers in Very Old DNA – interview with svante paabo.

Island-hopping odyssey brought civilisation to Europe“The farmers who brought advanced civilisation to Europe got there by sailing between the many islands strewn across the Aegean Sea between Greece and Turkey, according to a new genetic analysis. The first modern humans in Europe were hunter-gatherers who arrived around 40,000 years ago. But around 9000 years ago the first farmers arrived. They spread rapidly, dominating the continent by 7500 years ago, and pushing the hunter-gatherers into decline. The farmers originated in the Fertile Crescent in the Middle East, where farming arose, but until now no one knew which route they took to get to Europe.” – see also Publication Delays from greg cochran.

The population genomic landscape of human genetic structure, admixture history and local adaptation in Peninsular Malaysia“Peninsular Malaysia has greater genetic diversity corresponding to its role as a contact zone of both early and recent human migrations in Asia. However, each single Orang Asli (indigenous) group was less diverse with a smaller effective population size (Ne) than a European or an East Asian population, indicating a substantial isolation of some duration for these groups. All four MEGs were genetically more similar to Asian populations than to other continental groups, and the divergence time between MEGs and East Asian populations (12,000—6,000 years ago) was also much shorter than that between East Asians and Europeans. Thus, Malaysian Orang Asli groups, despite their significantly different features, may share a common origin with the other Asian groups. Nevertheless, we identified traces of recent gene flow from non-Asians to MEGs. Finally, natural selection signatures were detected in a batch of genes associated with immune response, human height, skin pigmentation, hair and facial morphology and blood pressure in MEGs. Notable examples include SYN3 which is associated with human height in all Orang Asli groups, a height-related gene (PNPT1) and two blood pressure-related genes (CDH13 and PAX5) in Negritos. We conclude that a long isolation period, subsequent gene flow and local adaptations have jointly shaped the genetic architectures of MEGs, and this study provides insight into the peopling and human migration history in Southeast Asia.”

Investigating brain connectivity heritability in a twin study using diffusion imaging data – h/t jayman! who tweeted: “Surprise, surprise: diffusion imaging twin study (N = 328) finds patterns of brain connectivity are heritable.”

The stability of self-control across childhood“Results indicate that variation [76%] in self-control is predominantly genetic.”

Race a factor in mortality in heart attack patients on anti-clotting drug“The first genetic variations linked to race have been identified that begin to explain a higher risk of death among some African American and Caucasian patients taking the anti-clotting drug clopidogrel after a heart attack. In particular, the team found that two DNA variants common in African Americans were associated with an increased risk of both bleeding and death. In Caucasians, a different variant was linked to additional heart attacks and a higher risk of death.” – h/t hbd bibliography!

A common Greenlandic TBC1D4 variant confers muscle insulin resistance and type 2 diabetes

GWAS-based pathway analysis differentiates between fluid and crystallized intelligence – h/t stuart ritchie! who tweeted: “Distinction between fluid and crystallised IQ at the genetic level.”

A hair-color allele of Neanderthal origin?“60-70% of Taiwanese aborigines have a loss-of-function allele at the main hair color gene, MC1R, yet their hair is as black as humans with the original ‘African’ allele. This seems to be a general pattern in Asians. They have fewer MC1R alleles than do Europeans, and the ones they have produce the same hair color.” – from peter frost.

Physical attractiveness as a phenotypic marker of health: an assessment using a nationally representative sample of American adults“[T]he more attractive a respondent was rated, the less likely he or she was to report being diagnosed with a wide range of chronic diseases and neuropsychological disorders. Importantly, this finding was observed for both sexes. These analyses provide further support for physical attractiveness as a phenotypic marker of health.”

Mellow, Paranoid, Happy, or Mean: Why do people respond so differently to the same drugs?“Although the research hasn’t settled on simple explanations, it’s clear that some combination of personality traits, genetics, and experience affects how people respond to intoxicants.”

How universal is empathy?“Pro-social behavior seems to be a human universal, but is the same true for full empathy?” – from peter frost.

Woodley launches his Victorian defence“The Woodley gang argue that, once they have done a complete re-analysis to respond to the points raised against their original ‘Victorians’ paper, their new results ‘reveal a seemingly robust secular trend towards slowing reaction time in these two countries, which translates into a potential dysgenics rate of −1.21 IQ points per decade, or −13.9 points in total between 1889 and 2004. We conclude by arguing that the best way forward is to test novel predictions stemming from our finding relating to molecular genetics, neurophysiology and alternative cognitive indicators, thus shifting the research focus away from the purely methodological level towards the broader nomological level. We thank our critics for helping us to arrive at a much more precise estimate of the decline in general intelligence.'” – @dr. james thompson’s blog.

HVGIQ: Cambodia and HVGIQ: Turks and Caicos Islands and HVGIQ: Vietnam – from jason malloy @human varieties.

U.S. Ethnic/Race Differences in Aptitude by Generation: An Exploratory Meta-analysis – from chuck @human varieties.

Ability, Effort, and Academic Achievement among Asian Americans – from steve hsu.

andrew “the goth” sabisky on the pisa tests/scores and their implications for education.

The Flynn effect and “real intelligence”(tm) and Why a mental age of eleven and an IQ of 70 are distinct – from elijah.

Embryo selection for cognitive enhancement: curiosity or game-changer?

Power to edit who you are – on CRISPR.

Reading to Newborns Is Probably Useless – from razib.

For One Baby, Life Begins with Genome Revealed“How a California father made an end run around medicine to decode his son’s DNA.” – on razib’s boy! (^_^)

Criminal offending as part of an alternative reproductive strategy: Investigating evolutionary hypotheses using Swedish total population data“Convicted criminal offenders had more children than individuals never convicted of a criminal offense. Criminal offenders also had more reproductive partners, were less often married, more likely to get remarried if ever married, and had more often contracted a sexually transmitted disease than non-offenders. Importantly, the increased reproductive success of criminals was explained by a fertility increase from having children with several different partners. We conclude that criminality appears to be adaptive in a contemporary industrialized country, and that this association can be explained by antisocial behavior being part of an adaptive alternative reproductive strategy.” – h/t mary lou cowan! – chicks dig jerks. – see also You dropped your glove, my liege from the awesome epigone.

Men Who Hate Women – from staffan.

Why women see differently from the way men see? A review of sex differences in cognition and sports – h/t keith laws!

For The First Time, Chimpanzees Are Making A Fashion Statement — Sticking Blades Of Grass In Their Ears“It’s a trend that’s taken a troop of chimpanzees by storm: a blade of grass dangling from an ear. The “grass-in-ear behavior,” as scientists have termed it, seems to be one of the first times that chimpanzees have created a tradition with no discernible purpose — a primate fashion statement, in other words…. There’s no genetic or ecological factors, the scientists believe, that would account for this behavior — only culture.” – but, but, but…where does chimp culture come from?

Faces of Old World monkeys evolved to prevent crossbreeding

No effects of androgen receptor gene CAG and GGC repeat polymorphisms on digit ratio (2D:4D): A comprehensive meta-analysis and critical evaluation of research“In contrast to a small-sample (N=50) initial report, widely cited affirmatively in the literature, meta-analysis of the entire retrievable evidence base did not support any associations between CAG variants and right-hand, left-hand, or right-minus-left-hand 2D:4D. Effects of GGC variants on digit ratios likewise were almost exactly null.” – h/t dr. zhana!

Parents of children with autism often have autistic traits – kid has all his ducks in a row! (~_^) – h/t jason moore!

Sensitive? Emotional? Empathetic? It could be in your genes“Do you jump to help the less fortunate or cry during sad movie scenes? If yes, you may be among the 20 percent of our population that is genetically pre-disposed to empathy, according to a study. The results provide further evidence that highly sensitive people are generally highly tuned into their environment, and provide evidence that especially high levels of awareness and emotional responsiveness are fundamental features of humans characterized as HSPs.” – h/t mr. robert ford!

Negotiating the gap: Four academics and the dilemma of human biodiversity – from peter frost.

Guns & Violence, Again – from jayman.

The Little Divergence“A ‘great divergence’ between the economies of Western Europe and East Asia had unambiguously occurred by 1800. However, there’s a growing body of opinion that this was preceded by a ‘little divergence’ which might have started as early as 1200. I argue that the pre-modern ‘little divergence’ was probably real, but that doesn’t mean it happened because of a modern growth process — a sustained rise in the production efficiency of the divergent economies. The ‘little divergence’ might be only a reflexion of those societies’ Malthusian balance of natality and mortality.” – from pseudo. – see also Addendum to The Little Divergence.

Searching for the “Free Will” Neuron“Gabriel Kreiman’s single-neuron measurements of unconscious decision-making may not topple Descartes, but they could someday point to ways we can learn to control ourselves.”

Denying the Tribe – from claire lehmann.

Mike Lotus Meeting with Emmanuel Todd in Paris, Discussing Todd’s Current Work and America 3.0“Todd spoke about the origins of the Absolute Nuclear Family, as contrasted with the Community Family which predominates in much of Eurasia. Todd said that his most recent book, ‘L’Origine des systemes familiaux’ he shows that the entire history of the world is understood backward. Specifically, the supposedly most backward places are the most advanced. He told me that he had made an absurd mistake in his early book The Explanation of Ideology: Family Structure and Social Systems. He said in Explanation that the distribution of family systems appeared to be random. But, he said, he should have realized that this could not be correct. He took out a pile of printer paper and with rapid strokes sketched an oval and filled in the center, noting that this was the community family area. It was a given that I understood that the oval was Eurasia. He then marked Xs around the periphery for England, Iceland, Finland, France, Japan, Korea, the Philippines all areas which were still individualistic in family structure. He said the book articulates the ‘Principle of Peripheral Conservation.’ The oldest known family structure is the Undifferentiated Nuclear Family (UNF). In England the UNF evolved into the ANF over many centuries. The Community Family forms took four to five thousand years to form and to reach their current state of development. In particular the subjugation of women took a very long time to complete in these systems. In other words, the societies which are currently considered the most modern have as a foundation an archaic family structure.” – h/t t.greer!

A Dozen Words for Misunderstood“Slaying, yet again, the idea that the languages we speak shape the thoughts we think.” – h/t steve stewart williams!

Understanding current causes of women’s underrepresentation in science“[D]ifferential gendered outcomes in the real world result from differences in resources attributable to choices, whether free or constrained, and that such choices could be influenced and better informed through education if resources were so directed. Thus, the ongoing focus on sex discrimination in reviewing, interviewing, and hiring represents costly, misplaced effort: Society is engaged in the present in solving problems of the past, rather than in addressing meaningful limitations deterring women’s participation in science, technology, engineering, and mathematics careers today.”

Breaking the Glass Ceiling? The Effect of Board Quotas on Female Labor Market Outcomes in Norway [pdf] – h/t ben southwood! who tweeted: “Norwegian gender quotas on boards had ‘very little discernible impact on women in business beyond its direct effect.'”

Archaeological cave dig unearths artefacts from 45,000 years ago“An archeological dig has revealed artefacts of early occupation so old they rival the dates of those found at sites of the earliest human settlement in Australia. The discovery of the artefacts of animal bone and charcoal at the Ganga Maya Cave (named by traditional owners meaning ‘house on the hill’) in the Pilbara region of Western Australia are the subject of a scientific paper not yet submitted to archaeological journals.”

Artificial cranial modification in Kow Swamp and Cohuna“This project provides added support for the argument that at least some Pleistocene Australian groups were practicing artificial cranial modification.” – h/t neuroskeptic!

Researchers discover 6,200-year-old schistosomiasis parasite egg“Researchers have discovered what they believe is the oldest ever schistosomiasis parasite egg in a 6,200-year-old grave by the Euphrates river in Syria, potentially providing the first evidence that Middle East agricultural irrigation systems – the artificial application of water to land or soil – may have contributed to the schistosomiasis burden.” – d*mn agriculture! – h/t adam benton @evoanth!

Tablet about payment of donkey debt discovered in Kültepe believed to be oldest trade document – h/t frau katze!

bonus: Assessment of Genetic Variability of Fish Personality Traits using Rainbow Trout Isogenic Lines“The study of inter-individual variability of personality in fish is a growing field of interest but the genetic basis of this complex trait is still poorly investigated due to the difficulty in controlling fish genetic origin and life history…. To this end, seven to ten rainbow trout isogenic lines were screened for their spatial exploratory behaviour, their flight response toward a stressor and their risk taking behaviour. Results showed that some lines seemed less sensitive to new events or environmental changes and could be defined as low responsive, while others were very sensitive and defined as high responsive.” – h/t justin tiehen!

bonus bonus: Meet one of your ancestors: a 505-million-year-old fish

bonus bonus bonus: H. pylori Bacteria Frantically Mutate to Establish Infection“A burst of rapid evolution allows Helicobacter pylori, the bacterium that causes ulcers in humans, to evade the immune system during the early, acute phase of infection. This finding complements earlier work that quantified how quickly H. pylori mutations accumulate during chronic infection. During the acute phase, mutational rates are 30 to 50 times greater than during the chronic phase.”

bonus bonus bonus bonus: An 81 million year herpes infection: First endogenous herpes virus found!

bonus bonus bonus bonus bonus: Scientific proof that dogs don’t like bananas

(note: comments do not require an email. social construct duck vs. social construct duck!)

well this seems important! via race/history/evolution notes, an abstract from the society for molecular biology and evolution 2014 conference (in puerto rico! – teh scientists are always good to themselves whenever they can be (~_^) ):

Evidence for different mutation rates across human populations
Ron Do, David Reich
Department of Genetics, Harvard Medical School, Boston, USA

Although mutation rates (per base pair) have clearly changed across primate evolution, many analyses continue to assume that all present-day human populations have the same mutation rates. Recently, William Amos analyzed 1000 Genomes Project and Complete Genomics sequences and found evidence of significantly higher divergence rates on African than on non-African lineages since separation (W. Amos, PLoS One 4, e63048). The detected pattern was strongest in genomic regions of high polymorphism rate, a pattern that the author hypothesized was due to ‘heterozygote instability’, whereby gene conversion events surrounding heterozygous sites increase the mutation rate. To further test this observation, we measured the relative accumulation of mutations in lineages drawn from two different populations, using 25 deep genome sequences generated according to the same experimental protocol using the Illumina technology. We carried out pairwise comparisons of five sub-Saharan African (Dinka, Mandenka, Mbuti, San, Yoruba) and eight Non-African populations (Australian, Dai, French, Han, Karitiana, Mixe, Papuan, Sardinian) on all divergent sites. We observed statistically significant differences in the relative accumulation of mutations for many pairs of African and Non-African populations. Among the strongest differences is significantly more lineage-specific mutations in Mbuti than in Han Chinese (R=1.044, standard error (SE) =0.0015). On average, we observed about 1% more mutations on African lineages compared to Non-African lineages. We also observed some significant differences across non-African populations, with the Han Chinese who have experienced extreme expansions in population size associated with agriculture having more mutations than the Karitiana, a hunter-gatherer population from Amazonia who did not experience such expansions (R=1.015, SE=0.0014). The results are consistent across both European and African segments of the human reference sequence, so are not an artifact of reference sequence bias. Taken together, these results support the view that per-base pair mutation rates may be dynamically and substantially changing across humans.


wrt to greater number of mutations in african lineages: polygamy (and, therefore, older fathers)? life in the tropics?

(note: comments do not require an email. old san juan. (^_^) )

Is Beauty in the Face of the Beholder?“We concluded that individuals, if given the opportunity, seek to promote ‘positive assortment’ for Self’s phenotype, especially when the level of similarity approaches an optimal point that is similar to Self without causing a conscious acknowledgment of the similarity.” – on assortative mating, via race/history/evolution notes.

3.4-7.9% Neandertal admixture in Eurasia?“‘Our analysis allows us — for the first time — to formally reject a history of ancestral population structure and instead reveals strong support for admixture from Neandertals into Eurasian populations at a higher rate (3.4%-7.9%) than suggested previously.'” – @dienekes’.

and speaking of neanderthals: Neanderthals made leather-working tools like those in use today.

Genetics and alcoholism“Abundant evidence indicates that alcohol dependence (alcoholism) is a complex genetic disease, with variations in a large number of genes affecting a person’s risk of alcoholism. Some of these genes have been identified, including two genes involved in the metabolism of alcohol (ADH1B and ALDH2) that have the strongest known affects on the risk of alcoholism. Studies continue to reveal other genes in which variants affect the risk of alcoholism or related traits, including GABRA2, CHRM2, KCNJ6 and AUTS2.”

Sense of smell has a genetic flavour“Richard Newcomb of the New Zealand Institute for Plant and Food Research (IPFR) in Auckland and his colleagues have found the most convincing evidence yet of a genetic basis to the differences in people’s odour perception.” – via hbd bibliography.

Immigration and inbreeding“[T]he more inbred a country is, the more restrictive the attitudes of its population are on the issues of immigration and citizenship. Conversely, the more outbred a country is, the more its inhabitants tend toward unrestricted open borders.” – from the awesome epigone.

Religious people are less intelligent than atheists, analysis of over 63 scientific studies stretching back over decades concludes“Study found ‘a reliable negative relation between intelligence and religiosity’ in 53 out of 63 studies.” – via nelson.

Jason Richwine and some Hispanic data“In summary, if one uses scholastic data as a measure of ability, then there was some significant narrowing of the White/Hispanic gap in the early 1980’s, but that reduced gap has persisted thereafter. This finding discomforts those who predicted that the gap would never change, and those who said it was closing fast and would shortly disappear. Both are wrong, are partially right.” – from dr. james thompson.

Why can’t we talk about IQ? – from jason richwine. (in case you live in a cave. (~_^) )

ORIGINAL PAPER: Strong genetic influence on a UK nationwide test of educational achievement at the end of compulsory education at age 16 – @dr. james thompson’s blog. also Revealed: how exam results owe more to genes than teaching“New research by Professor Robert Plomin shows genes are more important than we like to think.”

Archaeology: The milk revolution“When a single genetic mutation first let ancient Europeans drink milk, it set the stage for a continental upheaval.” – @nature. see also Impressed Ware and Linear Pottery – Linearbandkeramik from greg cochran.

Variable mutation rates – age of puberty and There can only be one! from greg cochran.

A Tentative Ranking of the Clannishness of the “Founding Fathers” and The Cavaliers – from jayman.

Race matters when a patient needs a stem cell or marrow transplant“If you become ill with a blood cancer or other disease that requires a stem cell transplant, here’s an uncomfortable fact: Your race matters.” – why that fact should be *uncomfortable*, i have no idea, but i do admit that i’m odd. – via nelson.

Population Structure of Hispanics in the United States: The Multi-Ethnic Study of Atherosclerosis“By comparing genetic ancestry of MESA Hispanic participants to reference samples representing worldwide diversity, we show major differences in ancestry of MESA Hispanics reflecting their Caucasian, African, and Native American origins, with finer differences corresponding to North-South geographic origins that separate MESA Mexican versus Central/South American samples. Based on our analysis, we define four subgroups of the MESA Hispanic cohort that show close agreement with the following self-identified regions of origin: Dominican/Cuban, Mexican, Central/South American, and Puerto Rican.” – via nelson.

Perception of skin color in sub-Saharan Africa and Great hair … and how it evolved – from peter frost.

Book Review: The Righteous Mind – Why Good People Are Divided by Politics and Religion (2012) by Jonathan Haidt – from staffan. also James Q. Wilson and the Defense of Moral Judgment.

Why We Profile – from m.g. @thosewhocansee.

Classical eugenics and genetic engineering – from elijah armstrong.

Smart Enough to Know Better: Intelligence Is Not a Remedy for Racism“Smart people are just as racist as their less intelligent peers — they’re just better at concealing their prejudice, according to a University of Michigan study.”

Maternal urge decreases by a QUARTER for every 15 extra IQ points – from satoshi kanazawa.

Autistic girls have more ‘masculine’ brains and are ‘affected by the condition in a different way to men’

Personality May Predict If You Like Spicy Foods“Those in the group who fell below the mean AISS [adverse to risk taking] rapidly disliked the meal as the burn increased. People who were above the mean AISS [prone to risk taking] had a consistently high liking of the meal even as the burn increased. Those in the mean group liked the meal less as the burn increased, but not nearly as rapidly as those below the mean.”

Gherardini DNA Sample Could Identify “Mona Lisa”

bonus: BBC is biased toward the left, study finds“The BBC is twice as likely to cover left-wing policy proposals than those that are right-wing, a study has found.”

bonus bonus: The smell of fear more powerful than previously realised

bonus bonus bonus: Psychological adaptation to urbanization, technology reflected in word usage over last 200 years

bonus bonus bonus bonus: Paying Teens Not to Have Sex: What Mississippi Can Learn From Malawi. also The amazing, surprising, Africa-driven demographic future of the Earth, in 9 charts via michael anissimov.

bonus bonus bonus bonus bonus: Monsters, Marvels, and the Birth of Science“History: How the unlikely and unexplainable, strange and terrifying, spawned the age of science.”

bonus bonus bonus bonus bonus bonus: The lost voices of Britain before WW1: German recording of British PoWs reveals a rural society rich in now extinct accents that varied from village to village

bonus bonus bonus bonus bonus bonus bonus: Five hundred new fairytales discovered in Germany“Collection of fairytales gathered by historian Franz Xaver von Schönwerth had been locked away in an archive in Regensburg for over 150 years.”

bonus bonus bonus bonus bonus bonus bonus bonus: and funniest online sentence from last week – from the derb (of course!): “The latest round of revelations about Weiner, reported by Radio Derb last week, have certainly caused his poll numbers to detumesce.” – heh! (^_^)

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today, some classics (and soon-to-be classics?):

Latitude, elevation and the tempo of molecular evolution in mammals“[B]ecause climatic variables change with latitude and elevation in a similar manner, our results suggest that climate has influenced the tempo of genetic change in mammals…. These findings provide new insights into microevolution that are likely to have important implications for understanding global patterns of biodiversity and diversification.”

An Asian perspective on early human dispersal from Africa“Asia might not have been the passive recipient of whatever migrated out of Africa but might have been a major donor to speciation events, as well as dispersals back into Africa. Such two-way traffic is well documented for other mammals in the Pliocene and Early Pleistocene, such as Equus and bovids, with more taxa migrating into than out of Africa. There is no reason why hominin migrations were always from Africa into Asia, and movements in the opposite direction might also have occurred, as has been suggested for the Olduvai OH9 (refs 13, 58) and Daka specimens. We should even allow for the possibility that H. ergaster originated in Asia and perhaps explain its lack of an obvious east African ancestry as the result of immigration rather than a short (and undocumented) process of anagenetic (in situ) evolution (Dennell and Roebroeks 2005:1100-1101).” – see also: Did Early Humans First Arise in Asia, Not Africa?

Recent acceleration of human adaptive evolution“It is sometimes claimed that the pace of human evolution should have slowed as cultural adaptation supplanted genetic adaptation…. Cultural changes have reduced mortality rates, but variance in reproduction has continued to fuel genetic change. In our view, the rapid cultural evolution during the Late Pleistocene created vastly more opportunities for further genetic change, not fewer, as new avenues emerged for communication, social interactions, and creativity.” – hawks, wang, cochran, harpending & moyzis.

Innate Social Aptitudes of Man: An Approach from Evolutionary Genetics [opens pdf] – w.d. hamilton.

How obedience of marriage rules may counteract genetic drift“Continuous unilateral or bilateral cross-cousin mating, reflecting the most common form of prescribed marriage, increases homozygosity but at the same time slows down considerably the loss of gene diversity due to genetic drift.”

It’s All Relative: Race as partly inbred extended family – from steve sailer.

Human genetic diversity: Lewontin’s fallacy [opens pdf] – “In popular articles that play down the genetical differences among human populations, it is often stated that about 85% of the total genetical variation is due to individual differences within populations and only 15% to differences between populations or ethnic groups. … This conclusion, due to R.C. Lewontin in 1972, is unwarranted because the argument ignores the fact that most of the information that distinguishes populations is hidden in the correlation structure of the data and not simply in the variation of the individual factors.”

Discerning the Ancestry of European Americans in Genetic Association Studies“Here we mine much larger datasets (more markers and more samples) to identify a panel of 300 highly ancestry-informative markers which accurately distinguish not just northwest and southeast European, but also Ashkenazi Jewish ancestry.”

Genes predict village of origin in rural Europe“After excluding close kin and inbreeding, village of origin could still be predicted correctly on the basis of genetic data for 89–100% of individuals.”

E Pluribus Unum: Diversity and Community in the Twenty-first Century [opens pdf] – “New evidence from the US suggests that in ethnically diverse neighbourhoods residents of all races tend to ‘hunker down’. Trust (even of one’s own race) is lower, altruism and community cooperation rarer, friends fewer.” – robert putnam.

The Misguided Advocates of Open Borders“Rising diversity within human societies tends to drive people apart, causing them to take sanctuary in individual pursuits and ethnic communities. The practical consequences are reduced public altruism or social capital, evident in falling volunteerism, government welfare for the aged and sick, public health care and a general loss of trust. Ethnic diversity is second only to lack of democracy in predicting civil war. Globally it correlates negatively with governmental efficiency and prosperity.” – frank salter.

Why g Matters: The Complexity of Everyday Life [opens pdf] – linda gottfredson.

State IQ estimates (2009) – from the awesome epigone.

Inbreeding depression and IQ in a study of 72 countries [opens pdf]. see also Consanguinity and national IQ scores.

American Murder Mystery“Why is crime rising in so many American cities? The answer implicates one of the most celebrated antipoverty programs of recent decades.” – h/t anonymous.

bonus: Ethnic differences: Variation in human testis Size – jared diamond.

bonus bonus: Late Middle Eocene primate from Myanmar and the initial anthropoid colonization of Africa

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Growing your own merchant class“To explain the high incidence of Tay-Sachs among Ashkenazi Jews, some authors have invoked heterozygote advantage…. A similar situation may have developed in eastern Quebec, where the relative scarcity of British and American merchants made it easier for French Canadians to enter occupations that required literacy, numeracy, and future time orientation.” — cool! from peter frost.

A slower mutation rate has implications… and here they are“Researchers have long used an autosomal mutation rate for humans that was based on a calibration of the split between humans and chimps…. More recently, a variety of studies using a variety of techniques (latest one from ASHG 2012) all came up with a rate that is about half that value.” — important stuff from dienekes.

Learning faster with neurodegenerative disease“People who bear the genetic mutation for Huntington’s disease learn faster than healthy people. The more pronounced the mutation was, the more quickly they learned.”

Eating disorders and the extreme female brain – @the breviary.

Were you Assimilable? – superb post from m.g. over @those who can see!

How early social deprivation impairs long-term cognitive function“Social isolation during early life prevents the cells that make up the brain’s white matter from maturing and producing the right amount of myelin….”

Soapy taste of coriander linked to genetic variants“Dislike of herb traced to genes encoding odour and taste receptors.”

Looking at you: Face genes identified“5 genes have been found to determine human facial shapes.” — see also Police could create image of suspect’s face from DNA.

The Return of the Ugly, Racist Pseudoscientist with a Small Penis – kanazawa’s back. (~_^) via steve sailer.

bonus: GM corn loses its edge against pests“Corn rootworms in the US may have developed resistance to a protective chemical made by a genetically modified corn.”

bonus bonus: Giant viruses coexisted with the cellular ancestors and represent a distinct supergroup along with superkingdoms Archaea, Bacteria and Eukarya

bonus bonus bonus: After Egyptian Dictatorship Comes Epidemic Harassment Of Women“Progress is not inevitable….” — no. no it’s not. from parapundit.

bonus bonus bonus bonus: Greed and Debt: The True Story of Mitt Romney and Bain Capital — from matt taibbi. via anatoly.

bonus bonus bonus bonus bonus: In China We (Don’t) Trust

(note: comments do not require an email. don’t forget! — death to america!)

Ancestral link places Mexican-Americans at greater risk for metabolic disease“Mexican-Americans with an ancestral link to Amerindian tribes were found to have higher insulin resistance levels, which is an indication of several chronic conditions such as type 2 diabetes….”

Most mutations come from dad“Humans inherit more than three times as many mutations from their fathers as from their mothers, and mutation rates increase with the father’s age but not the mother’s….” see also Father’s Age Is Linked to Risk of Autism and Schizophrenia. and see also greg cochran (h/t jayman!).

Human responses to unfairness with primary rewards and their biological limits“[H]umans care about being treated fairly when bargaining with primary rewards, and, together with a broader literature suggest that such reciprocal altruism may be particularly prominent in humans.” – note that the study seems to have been conducted on “w.e.i.r.d.” students.

African National IQs, redux“The average for 40 African nations comes out to 75.” – from chuck.

Solutions, Again – jayman’s ideas for a better future!

Working memory training does not improve IQ – from the inductivist.

Male Circumcision and Health Care Costs – @the breviary.

A decade after Steven Pinker’s The Blank Slate, why is human nature still taboo? – from ed west.

Hypergamy In China Cutting Fertility Of High Ranking Women – from parapundit.

Do Drivers Make Way In Your Country? – from anatoly.

Divergent Whole-Genome Methylation Maps of Human and Chimpanzee Brains Reveal Epigenetic Basis of Human Regulatory Evolution“Hundreds of genes exhibit significantly lower levels of promoter methylation in the human brain than in the chimpanzee brain…. Differentially methylated genes [in humans] are strikingly enriched with loci associated with neurological disorders, psychological disorders, and cancers.”

Dusting Off GOD“The implication — that religion is basically malevolent, that it ‘poisons everything,’ in the words of the late Christopher Hitchens — is a standard assertion of the New Atheists…. Before you can know for sure, you have to figure out what religion does for us in the first place.”

Planet of the apes“What we really know about our evolutionary past – and what we don’t” – nice review of a couple of human evolution books.

bonus: Octopuses Gain Consciousness (According to Scientists’ Declaration)

bonus bonus: The Racial Divide on … Sneakers

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i posted about this before, but the topic came up in conversation recently, so i thought i’d post about it again:

“Evolution faster when it’s warmer”
24 June 2009

“Climate could have a direct effect on the speed of ‘molecular evolution’ in mammals, according to a study.

“Researchers have found that, among pairs of mammals of the same species, the DNA of those living in warmer climates changes at a faster rate.

“These mutations – where one letter of the DNA code is substituted for another – are a first step in evolution.

“The study, reported in Proceedings of the Royal Society B, could help explain why the tropics are so species-rich….

“The idea that microevolution happens faster in warmer environments is not new. But this is the first time the effect has been shown in mammals, which regulate their own body temperature.

“‘The result was unexpected,’ said Len Gillman from Auckland University of Technology, who led the study.

“‘We have previously found a similar result for plant species and other groups have seen it in marine animals. But since these are “ectotherms” – their body temperature is controlled directly by the environment – everyone assumed that the effect was caused by climate altering their metabolic rate….’

“‘We suspected the same effect might be happening in mammals, because seasonal changes affect the animals’ activity,’ Dr Gillman told BBC News.

“He and his team compared the DNA of 130 pairs of mammals, looking at genetically similar ‘sister species’ – where each of the pair lived at a different latitude or elevation.

“They tracked changes in one gene that codes for a protein known as cytochrome b, comparing the same gene in each of the pair of mammals to a “reference” gene in a common ancestor.

“By looking for mutations in the DNA code for this gene – each point where one letter in the code was substituted for another – the researchers were able to see which of the two mammals had ‘microevolved’ faster.

“Animals living in environments where the climate was warmer, had about 1.5 times more of these substitutions than the animals living in cooler environments.

“Dr Gillman explained that, at higher latitudes where environments are colder and less productive, animals often conserve their energy – hibernating or resting to reduce their metabolic activity.

“‘In warmer climates annual metabolic activity is likely to be greater, so this will lead to more total cell divisions per year in the germline.’

“These results support the idea that high tropical biodiversity is caused by faster rates of evolution in warmer climates.”

here’s the original research article: Latitude, elevation and the tempo of molecular evolution in mammals

one of the first things that popped into my mind — right after cool! — when hearing about this a few years ago was: so what could this mean for the out-of-africa (ooa) theory? one of the foundational pillars of ooa is that, because genetic variation is greatest in africans, they must be some of the oldest populations on earth ’cause they’ve acquired so many, many mutations — therefore, everyone else prolly came ooa:

“A 10-year study published in 2009 analyzed the patterns of variation at 1,327 DNA markers of 121 African populations, 4 African American populations, and 60 non-African populations. The research showed that there is more human genetic diversity in Africa than anywhere else on Earth….

“Human genetic diversity decreases in native populations with migratory distance from Africa and this is thought to be the result of bottlenecks during human migration, which are events that temporarily reduce population size. It has been shown that variations in skull measurements decrease with distance from Africa at the same rate as the decrease in genetic diversity. These data support the Out of Africa theory over the multiregional origin of modern humans hypothesis.”

but if genetic variation might be increased just by living in a hot climate … well … then what?

more recently, davidski over at eurogenes posted about this paper the other day: An Abundance of Rare Functional Variants in 202 Drug Target Genes Sequenced in 14,002 People. turns out african americans have a lot more rare genetic variants than europeans — and northern europeans have the least of all:

could the differences be related to the fact that these people’s ancestors came from different latitudes/climates and, so, their mutation rates were different? dunno. maybe.

previously: here’s my question

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