Noninvasive genome sampling in chimpanzees.

Abstract:

:The inevitable has happened: genomic technologies have been added to our noninvasive genetic sampling repertoire. In this issue of Molecular Ecology, Perry et al. (2010) demonstrate how DNA extraction from chimpanzee faeces, followed by a series of steps to enrich for target loci, can be coupled with next-generation sequencing. These authors collected sequence and single-nucleotide polymorphism (SNP) data at more than 600 genomic loci (chromosome 21 and the X) and the complete mitochondrial DNA. By design, each locus was 'deep sequenced' to enable SNP identification. To demonstrate the reliability of their data, the work included samples from six captive chimps, which allowed for a comparison between presumably genuine SNPs obtained from blood and potentially flawed SNPs deduced from faeces. Thus, with this method, anyone with the resources, skills and ambition to do genome sequencing of wild, elusive, or protected mammals can enjoy all of the benefits of noninvasive sampling.

journal_name

Mol Ecol

journal_title

Molecular ecology

authors

Kohn MH

doi

10.1111/j.1365-294X.2010.04889.x

subject

Has Abstract

pub_date

2010-12-01 00:00:00

pages

5328-31

issue

24

eissn

0962-1083

issn

1365-294X

journal_volume

19

pub_type

评论,杂志文章
  • Coyote movements and social structure along a cryptic population genetic subdivision.

    abstract::A recent region-wide study determined that the central California coyote (Canis latrans) population was genetically subdivided according to habitat bioregions, supporting the hypothesis that coyotes exhibit a dispersal bias toward their natal habitat type. Here, we further investigated this hypothesis using radio-coll...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/j.1365-294X.2005.02473.x

    authors: Sacks BN,Mitchell BR,Williams CL,Ernest HB

    更新日期:2005-04-01 00:00:00

  • Copy number variants outperform SNPs to reveal genotype-temperature association in a marine species.

    abstract::Copy number variants (CNVs) are a major component of genotypic and phenotypic variation in genomes. To date, our knowledge of genotypic variation and evolution has largely been acquired by means of single nucleotide polymorphism (SNPs) analyses. Until recently, the adaptive role of structural variants (SVs) and partic...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.15565

    authors: Dorant Y,Cayuela H,Wellband K,Laporte M,Rougemont Q,Mérot C,Normandeau E,Rochette R,Bernatchez L

    更新日期:2020-12-01 00:00:00

  • Phylogenetic divergence of island biotas: Molecular dates, extinction, and "relict" lineages.

    abstract::Island formation is a key driver of biological evolution, and several studies have used geological ages of islands to calibrate rates of DNA change. However, many islands are home to "relict" lineages whose divergence apparently pre-dates island age. The geologically dynamic New Zealand (NZ) archipelago sits upon the ...

    journal_title:Molecular ecology

    pub_type: 杂志文章,评审

    doi:10.1111/mec.15229

    authors: McCulloch GA,Waters JM

    更新日期:2019-10-01 00:00:00

  • Strong founder effects and low genetic diversity in introduced populations of Coqui frogs.

    abstract::The success of non-native species may depend on the genetic resources maintained through the invasion process. The Coqui (Eleutherodactylus coqui), a frog endemic to Puerto Rico, was introduced to Hawaii in the late 1980s via the horticulture trade, and has become an aggressive invader. To explore whether genetic dive...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/j.1365-294X.2009.04308.x

    authors: Peacock MM,Beard KH,O'Neill EM,Kirchoff VS,Peters MB

    更新日期:2009-09-01 00:00:00

  • Phylogeny, biogeography and evolution of clutch size in South American lizards of the genus Kentropyx (Squamata: Teiidae).

    abstract::The lizard genus Kentropyx (Squamata: Teiidae) comprises nine species, which have been placed in three species groups (calcarata group, associated to forests ecosystems; paulensis and striata groups, associated to open ecosystems). We reconstructed phylogenetic relationships of Kentropyx based on morphology (pholidosi...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/j.1365-294X.2008.03999.x

    authors: Werneck Fde P,Giugliano LG,Collevatti RG,Colli GR

    更新日期:2009-01-01 00:00:00

  • Landscape genetics, historical isolation and cross-Andean gene flow in the wax palm, Ceroxylon echinulatum (Arecaceae).

    abstract::Knowledge of the role of landscapes in shaping genetic connectivity and divergence is essential for understanding patterns of biogeography and diversity. This is particularly relevant for the Andes region, a major biodiversity hotspot of relatively recent origin. We examined the phylogeography and landscape genetics o...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/j.1365-294x.2008.03853.x

    authors: Trénel P,Hansen MM,Normand S,Borchsenius F

    更新日期:2008-08-01 00:00:00

  • Genomewide signatures of selection in Epichloë reveal candidate genes for host specialization.

    abstract::Host specialization is a key process in ecological divergence and speciation of plant-associated fungi. The underlying determinants of host specialization are generally poorly understood, especially in endophytes, which constitute one of the most abundant components of the plant microbiome. We addressed the genetic ba...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.14585

    authors: Schirrmann MK,Zoller S,Croll D,Stukenbrock EH,Leuchtmann A,Fior S

    更新日期:2018-08-01 00:00:00

  • Expression of olfactory receptors in different life stages and life histories of wild Atlantic salmon (Salmo salar).

    abstract::It has been hypothesized that salmonids use olfactory cues to return to their natal rivers and streams. However, the key components of the molecular pathway involved in imprinting and homing are still unknown. If odorants are involved in salmon homing migration, then olfactory receptors should play a critical role in ...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/j.1365-294X.2011.05251.x

    authors: Johnstone KA,Lubieniecki KP,Koop BF,Davidson WS

    更新日期:2011-10-01 00:00:00

  • Evolutionary insight from whole-genome sequencing of experimentally evolved microbes.

    abstract::Experimental evolution (EE) combined with whole-genome sequencing (WGS) has become a compelling approach to study the fundamental mechanisms and processes that drive evolution. Most EE-WGS studies published to date have used microbes, owing to their ease of propagation and manipulation in the laboratory and relatively...

    journal_title:Molecular ecology

    pub_type: 杂志文章,评审

    doi:10.1111/j.1365-294X.2012.05484.x

    authors: Dettman JR,Rodrigue N,Melnyk AH,Wong A,Bailey SF,Kassen R

    更新日期:2012-05-01 00:00:00

  • Plant-herbivorous beetle networks: molecular characterization of trophic ecology within a threatened steppic environment.

    abstract::DNA barcoding facilitates many evolutionary and ecological studies, including the examination of the dietary diversity of herbivores. In this study, we present a survey of ecological associations between herbivorous beetles and host plants from seriously threatened European steppic grasslands. We determined host plant...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.13278

    authors: Kajtoch Ł,Kubisz D,Heise W,Mazur MA,Babik W

    更新日期:2015-08-01 00:00:00

  • Differential gene expression in narrow- and broad-headed European glass eels (Anguilla anguilla) points to a transcriptomic link of head shape dimorphism with growth rate and chemotaxis.

    abstract::One of the major challenges in evolutionary biology is to understand the mechanisms underlying morphological dimorphism and plasticity, including the genomic basis of traits and links to ecology. At the yellow eel stage of the European eel (Anguilla anguilla), two morphotypes are found: broad- and narrow-heads. This d...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.14155

    authors: De Meyer J,Maes GE,Dirks RP,Adriaens D

    更新日期:2017-08-01 00:00:00

  • The influence of numbers on invasion success.

    abstract::The process by which a species becomes a biological invader, at a location where it does not naturally occur, can be divided into a series of sequential stages (transport, introduction, establishment and spread). A species' success at passing through each of these stages depends, in a large part, on the number of indi...

    journal_title:Molecular ecology

    pub_type: 杂志文章,评审

    doi:10.1111/mec.13075

    authors: Blackburn TM,Lockwood JL,Cassey P

    更新日期:2015-05-01 00:00:00

  • Ecological drift and local exposures drive enteric bacterial community differences within species of Galápagos iguanas.

    abstract::Diet strongly influences the intestinal microbial communities through species sorting. Alternatively, these communicates may differ because of chance variation in local microbial exposures or species losses among allopatric host populations (i.e. ecological drift). We investigated how these forces shape enteric commun...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/j.1365-294X.2012.05502.x

    authors: Lankau EW,Hong PY,Mackie RI

    更新日期:2012-04-01 00:00:00

  • Species turnover (β-diversity) in ectomycorrhizal fungi linked to NH4+ uptake capacity.

    abstract::Ectomycorrhizal (EcM) fungal communities may be shaped by both deterministic and stochastic processes, potentially influencing ecosystem development and function. We evaluated community assembly processes for EcM fungi of Pseudotsuga menziesii among 12 sites up to 400 km apart in southwest British Columbia (Canada) by...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.13435

    authors: Kranabetter JM,Hawkins BJ,Jones MD,Robbins S,Dyer T,Li T

    更新日期:2015-12-01 00:00:00

  • A call for more transparent reporting of error rates: the quality of AFLP data in ecological and evolutionary research.

    abstract::Despite much discussion of the importance of quantifying and reporting genotyping error in molecular studies, it is still not standard practice in the literature. This is particularly a concern for amplified fragment length polymorphism (AFLP) studies, where differences in laboratory, peak-calling and locus-selection ...

    journal_title:Molecular ecology

    pub_type: 杂志文章,评审

    doi:10.1111/mec.12069

    authors: Crawford LA,Koscinski D,Keyghobadi N

    更新日期:2012-12-01 00:00:00

  • Experimentally altered rainfall regimes and host root traits affect grassland arbuscular mycorrhizal fungal communities.

    abstract::Future climate scenarios predict changes in rainfall regimes. These changes are expected to affect plants via effects on the expression of root traits associated with water and nutrient uptake. Associated microorganisms may also respond to these new precipitation regimes, either directly in response to changes in the ...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.14536

    authors: Deveautour C,Donn S,Power SA,Bennett AE,Powell JR

    更新日期:2018-04-01 00:00:00

  • Patterns of hybridization and population genetic structure in the terrestrial orchids Liparis kumokiri and Liparis makinoana (Orchidaceae) in sympatric populations.

    abstract::We investigated the potential for gene flow and genetic assimilation via hybridization between common and rare species of the terrestrial orchid genus Liparis, focusing specifically on sympatric and allopatric populations of the common Liparis kumokiri and the rare Liparis makinoana. We utilized analyses of genetic di...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/j.1365-294X.2005.02738.x

    authors: Chung MY,Nason JD,Chung MG

    更新日期:2005-12-01 00:00:00

  • Does habitat fragmentation reduce fitness and adaptability? A case study of the common frog (Rana temporaria).

    abstract::Studies examining the effects of anthropogenic habitat fragmentation on both neutral and adaptive genetic variability are still scarce. We compared tadpole fitness-related traits (viz. survival probability and body size) among populations of the common frog (Rana temporaria) from fragmented (F) and continuous (C) habi...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/j.1365-294X.2007.03357.x

    authors: Johansson M,Primmer CR,Merilä J

    更新日期:2007-07-01 00:00:00

  • Convergence in organ size but not energy metabolism enzyme activities among wild Lake Whitefish (Coregonus clupeaformis) species pairs.

    abstract::The repeated evolution of similar phenotypes by similar mechanisms can be indicative of local adaptation, constraints or biases in the evolutionary process. Little is known about the incidence of physiological convergence in natural populations, so here we test whether energy metabolism in 'dwarf' and 'normal' Lake Wh...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.13847

    authors: Dalziel AC,Laporte M,Rougeux C,Guderley H,Bernatchez L

    更新日期:2017-01-01 00:00:00

  • Phylogeography of the flat-tailed horned lizard (Phrynosoma mcallii) and systematics of the P. mcallii-platyrhinos mtDNA complex.

    abstract::Two species of horned lizards are sympatric along the periphery of the Salton Trough. Phrynosoma mcallii, endemic to the trough, is of conservation concern because its limited habitat has been fragmented by human activities. A more common and widespread species, Phrynosoma platyrhinos, occurs around the periphery of t...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/j.1365-294X.2006.02892.x

    authors: Mulcahy DG,Spaulding AW,Mendelson JR 3rd,Brodie ED Jr

    更新日期:2006-06-01 00:00:00

  • Breeding origin and migration pattern of dunlin (Calidris alpina) revealed by mitochondrial DNA analysis.

    abstract::The large-scale migration of birds has been studied extensively by recoveries of ringed birds. However, there is very little ringing data from the arctic breeding grounds of waders. Here, the migration pattern of the dunlin, Calidris alpina, is studied with population genetic markers, using haplotype frequencies to es...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1046/j.1365-294x.2001.01256.x

    authors: Wennerberg L

    更新日期:2001-05-01 00:00:00

  • Variation in hybrid gene expression: Implications for the evolution of genetic incompatibilities in interbreeding species.

    abstract::Interbreeding species often produce low-fitness hybrids due to genetic incompatibilities between parental genomes. Whether these incompatibilities reflect fixed allelic differences between hybridizing species, or, alternatively, standing variants that segregate within them, remains unknown for many natural systems. Ye...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.15246

    authors: Seidl F,Levis NA,Jones CD,Monroy-Eklund A,Ehrenreich IM,Pfennig KS

    更新日期:2019-10-01 00:00:00

  • Correlates of gut community composition across an ant species (Cephalotes varians) elucidate causes and consequences of symbiotic variability.

    abstract::Insect guts are often colonized by multispecies microbial communities that play integral roles in nutrition, digestion and defence. Community composition can differ across host species with increasing dietary and genetic divergence, yet gut microbiota can also vary between conspecific hosts and across an individual's ...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.12607

    authors: Hu Y,Łukasik P,Moreau CS,Russell JA

    更新日期:2014-03-01 00:00:00

  • Assessment of stream macroinvertebrate communities with eDNA is not congruent with tissue-based metabarcoding.

    abstract::Freshwater biomonitoring programmes routinely sample aquatic macroinvertebrates. These samples are time-consuming to collect, as well as challenging and costly to identify reliably genus or species. Environmental DNA (eDNA) metabarcoding has emerged as a surrogate to traditional collection techniques and has been used...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.15597

    authors: Gleason JE,Elbrecht V,Braukmann TWA,Hanner RH,Cottenie K

    更新日期:2020-08-16 00:00:00

  • The coup de grâce for the nested clade phylogeographic analysis?

    abstract::Nested clade phylogeographic analysis (NCPA) has become a popular method for reconstructing the history of populations across species ranges. Ever since its invention in 1995, criticisms have been formulated, but the method, which has been regularly updated, continues to attract investigators. Molecular Ecology has pu...

    journal_title:Molecular ecology

    pub_type: 新闻

    doi:10.1111/j.1365-294X.2007.03589.x

    authors: Petit RJ

    更新日期:2008-01-01 00:00:00

  • Effects of population characteristics and structure on estimates of effective population size in a house sparrow metapopulation.

    abstract::Effective population size (N(e)) is a key parameter to understand evolutionary processes and the viability of endangered populations as it determines the rate of genetic drift and inbreeding. Low Ne can lead to inbreeding depression and reduced population adaptability. In this study, we estimated contemporary N(e) usi...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.12770

    authors: Baalsrud HT,Saether BE,Hagen IJ,Myhre AM,Ringsby TH,Pärn H,Jensen H

    更新日期:2014-06-01 00:00:00

  • Genomic analysis of a migratory divide reveals candidate genes for migration and implicates selective sweeps in generating islands of differentiation.

    abstract::Differential gene flow, reductions in diversity following linked selection and/or features of the genome can structure patterns of genomic differentiation during the process of speciation. Possible sources of reproductive isolation are well studied between coastal and inland subspecies groups of Swainson's thrushes, w...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.13150

    authors: Delmore KE,Hübner S,Kane NC,Schuster R,Andrew RL,Câmara F,Guigó R,Irwin DE

    更新日期:2015-04-01 00:00:00

  • Fine-scale genetic structure and dispersal in cooperatively breeding apostlebirds.

    abstract::In cooperatively breeding species, restricted dispersal of offspring leads to clustering of closely related individuals, increasing the potential both for indirect genetic benefits and inbreeding costs. In apostlebirds (Struthidea cinerea), philopatry by both sexes results in the formation of large (up to 17 birds), p...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/j.1365-294X.2006.03009.x

    authors: Woxvold IA,Adcock GJ,Mulder RA

    更新日期:2006-10-01 00:00:00

  • Low plant density enhances gene dispersal in the Amazonian understory herb Heliconia acuminata.

    abstract::In theory, conservation genetics predicts that forest fragmentation will reduce gene dispersal, but in practice, genetic and ecological processes are also dependent on other population characteristics. We used Bayesian genetic analyses to characterize parentage and propagule dispersal in Heliconia acuminata L. C. Rich...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.12495

    authors: Côrtes MC,Uriarte M,Lemes MR,Gribel R,Kress WJ,Smouse PE,Bruna EM

    更新日期:2013-11-01 00:00:00

  • Epigenetic variation reflects dynamic habitat conditions in a rare floodplain herb.

    abstract::Variation of DNA methylation is thought to play an important role for rapid adjustments of plant populations to dynamic environmental conditions, thus compensating for the relatively slow response time of genetic adaptations. However, genetic and epigenetic variation of wild plant populations has not yet been directly...

    journal_title:Molecular ecology

    pub_type: 杂志文章

    doi:10.1111/mec.12835

    authors: Schulz B,Eckstein RL,Durka W

    更新日期:2014-07-01 00:00:00