Abstract：
:Factors ranging from ecological opportunity to genome composition might explain why only some lineages form adaptive radiations. While being rare, particular systems can provide natural experiments within an identical ecological setting where species numbers and phenotypic divergence in two closely related lineages are notably different. We investigated one such natural experiment using two de novo assembled and 40 resequenced genomes and asked why two closely related Neotropical cichlid fish lineages, the Amphilophus citrinellus species complex (Midas cichlids; radiating) and Archocentrus centrarchus (Flyer cichlid; nonradiating), have resulted in such disparate evolutionary outcomes. Although both lineages inhabit many of the same Nicaraguan lakes, whole-genome inferred demography suggests that priority effects are not likely to be the cause of the dissimilarities. Also, genome-wide levels of selection, transposable element dynamics, gene family expansion, major chromosomal rearrangements and the number of genes under positive selection were not markedly different between the two lineages. To more finely investigate particular subsets of the genome that have undergone adaptive divergence in Midas cichlids, we also examined if there was evidence for 'molecular pre-adaptation' in regions identified by QTL mapping of repeatedly diverging adaptive traits. Although most of our analyses failed to pinpoint substantial genomic differences, we did identify functional categories containing many genes under positive selection that provide candidates for future studies on the propensity of Midas cichlids to radiate. Our results point to a disproportionate role of local, rather than genome-wide factors underlying the propensity for these cichlid fishes to adaptively radiate.
journal_name
Mol Ecoljournal_title
Molecular ecologyauthors
Xiong P,Hulsey CD,Fruciano C,Wong WY,Nater A,Kautt AF,Simakov O,Pippel M,Kuraku S,Meyer A,Franchini Pdoi
10.1111/mec.15774subject
Has Abstractpub_date
2020-12-11 00:00:00eissn
0962-1083issn
1365-294Xpub_type
杂志文章abstract：:Abstract Microsatellites are powerful molecular markers, used commonly to estimate intraspecific genetic distances. With the exception of band sharing similarity index, available distance measures were developed specifically for diploid organisms and are unsuited for comparisons of polyploids. Here, we present a simpl...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/j.1365-294X.2004.02209.x
更新日期：2004-07-01 00:00:00
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
更新日期：2007-07-01 00:00:00
abstract：:Phylogeographic patterns in Macrodon ancylodon sampled from 12 locations across all its range were investigated using mitochondrial DNA cytochrome b sequences, and analysed together with patterns of morphometric differentiation. Populations of the North Brazil and the Brazil currents, with warmer waters, form a clade ...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/j.1365-294X.2006.03108.x
更新日期：2006-12-01 00:00:00
abstract：:Random amplified polymorphic DNA (RAPD) fragments were prepared from samples of Calonectris diomedea (Cory's shearwater, Aves) and Haemonchus contortus (Nematoda) DNA by polymerase chain reaction (PCR) using decamers containing two restriction enzyme sites as primers. Six of 19 studied RAPD fragments probably originat...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1046/j.1365-294x.1999.00605.x
更新日期：1999-03-01 00:00:00
abstract：:We investigated the use of PCR primers designed to conserved exons within nuclear DNA to amplify potentially variable regions such as introns or hypervariable exons from a wide range of species. We then explored various approaches to assay population-level variation in these PCR products. Primers designed to amplify r...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/j.1365-294x.1993.tb00029.x
更新日期：1993-12-01 00:00:00
abstract：:Carrion beetles (Coleoptera, Silphidae) are well known for their behaviour of exploiting vertebrate carcasses for nutrition. While species in the subfamily Silphinae feed on large carcasses and on larvae of competing scavengers, the Nicrophorinae are unique in monopolizing, burying and defending small carrion, and pro...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/mec.12469
更新日期：2014-03-01 00:00:00
abstract：:The question of whether spatial aspects of evolution differ in marine versus terrestrial realms has endured since Ernst Mayr's 1954 essay on marine speciation. Marine systems are often suggested to support larger and more highly connected populations, but quantitative comparisons with terrestrial systems have been lac...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/mec.15726
更新日期：2020-11-10 00:00:00
abstract：:Root-associated fungi, particularly ectomycorrhizal fungi (EMF), are critical symbionts of all boreal tree species. Although climatically driven increases in wildfire frequency and extent have been hypothesized to increase vegetation transitions from tundra to boreal forest, fire reduces mycorrhizal inoculum. Therefor...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/mec.14143
更新日期：2017-07-01 00:00:00
abstract：:Genetic variation is often arrayed in latitudinal or altitudinal clines, reflecting either adaptation along environmental gradients, migratory routes, or both. For forest trees, climate is one of the most important drivers of adaptive phenotypic traits. Correlations of single and multilocus genotypes with environmenta...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/j.1365-294X.2010.04698.x
更新日期：2010-09-01 00:00:00
abstract：:Polyploidy (whole-genome duplication) has contributed significantly to angiosperm evolution and diversification. To date, it has been found that most polyploids are the result of multiple formation events, which may contribute to genetic diversity and affect interfertility among polyploid lineages of independent origi...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/j.1365-294X.2012.05706.x
更新日期：2012-11-01 00:00:00
abstract：:Increasing genetic diversity and maintaining evolutionary processes are primary goals of conservation translocations, which involve the intentional movement of an at-risk species to establish new populations or augment existing populations, with the ultimate goal of reversing declines. Much debate has focused on how t...
journal_title：Molecular ecology
pub_type： 评论,杂志文章
doi：10.1111/mec.15658
更新日期：2020-11-01 00:00:00
abstract：:Amphibians are a globally distributed and diverse lineage, but much of our current understanding of their population genetic structure comes from studies in mesic temperate habitats. We characterize the population genetic structure of two sympatric explosive breeding amphibians in the southwestern deserts of the Unite...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/j.1365-294X.2009.04273.x
更新日期：2009-08-01 00:00:00
abstract：:Accurate detection of offspring resulting from hybridization between individuals of distinct populations has a range of applications in conservation and population genetics. We assessed the hybrid identification efficiency of two methods (implemented in the STRUCTURE and NEWHYBRIDS programs) which are tailored to iden...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/j.1365-294X.2005.02773.x
更新日期：2006-01-01 00:00:00
abstract：:Climate is one of the most important drivers of local adaptation in forest tree species. Standing levels of genetic diversity and structure within and among natural populations of forest trees are determined by the interplay between climatic heterogeneity and the balance between selection and gene flow. To investigate...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/mec.12043
更新日期：2012-11-01 00:00:00
abstract：:The genetic structure of Apis mellifera populations from the Canary Islands has been assessed by mitochondrial (restriction fragment length polymorphisms of the intergenic transfer RNAleu-COII region) and nuclear (microsatellites) studies. These populations show a low level of genetic variation in terms of average num...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1046/j.1365-294x.2001.01303.x
更新日期：2001-07-01 00:00:00
abstract：:A half century ago the State of Hawaii began a remarkable, if unintentional, experiment on the population genetics of introduced species, by releasing 2431 Bluestriped Snappers (Lutjanus kasmira) from the Marquesas Islands in 1958 and 728 conspecifics from the Society Islands in 1961. By 1992 L. kasmira had spread acr...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/j.1365-294X.2010.04535.x
更新日期：2010-03-01 00:00:00
abstract：:The major aim of this study was to compare the phylogeographic patterns of codistributed bats and small nonvolant Neotropical mammals. Cytochrome b sequences (mitochondrial DNA) were obtained for a total of 275 bats representing 17 species. The tissue samples were collected in coastal Brazil, and were available from M...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1046/j.1365-294x.2000.01013.x
更新日期：2000-09-01 00:00:00
abstract：:Understanding how the environment shapes genetic variation provides critical insight about the evolution of local adaptation in natural populations. At multiple spatial scales and multiple geographic contexts within a single species, such information could address a number of fundamental questions about the scale of l...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/mec.15731
更新日期：2020-11-12 00:00:00
abstract：:Geographical isolation, habitat variation and trophic specialization have contributed to a large extent to the astonishing diversity of cichlid fishes in the Great East African lakes. Because parasite communities often vary across space and environments, parasites can accompany and potentially enhance cichlid species ...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/mec.13833
更新日期：2016-11-01 00:00:00
abstract：:Wolbachia is a common heritable bacterial symbiont in insects. Its evolutionary success lies in the diverse phenotypic effects it has on its hosts coupled to its propensity to move between host species over evolutionary timescales. In a survey of natural host-symbiont associations in a range of Drosophila species, we ...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/mec.14164
更新日期：2017-08-01 00:00:00
abstract：:Black rats are major invasive vertebrate pests with severe ecological, economic and health impacts. Remarkably, their evolutionary history has received little attention, and there is no firm agreement on how many species should be recognized within the black rat complex. This species complex is native to India and Sou...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/mec.12149
更新日期：2013-02-01 00:00:00
abstract：:Understanding the relative role of different evolutionary forces in shaping the level and distribution of functional genetic diversity among natural populations is a key issue in evolutionary and conservation biology. To do so accurately genetic data must be analysed in conjunction with an unambiguous understanding of...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/mec.13437
更新日期：2015-12-01 00:00:00
abstract：:Pollen DNA metabarcoding-marker-based genetic identification of potentially mixed-species pollen samples-has applications across a variety of fields. While basic species-level pollen identification using standard DNA barcode markers is established, the extent to which metabarcoding (a) correctly assigns species identi...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/mec.14840
更新日期：2019-01-01 00:00:00
abstract：:In the last decade, amplified fragment length polymorphisms (AFLPs) have become one of the most widely used molecular markers to study the genetic structure of natural populations. Most of the statistical methods available to study the genetic structure of populations using AFLPs consider these markers as dominant and...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/j.1365-294X.2010.04820.x
更新日期：2010-11-01 00:00:00
abstract：:Understanding connectivity of coral populations among and within reefs over ecologically significant timescales is essential for developing evidence-based management strategies, including the design of marineprotected areas. Here, we present the first assessment of contemporary connectivity among populations of two Mo...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/mec.12539
更新日期：2013-12-01 00:00:00
abstract：:Reproducibility is the benchmark for results and conclusions drawn from scientific studies, but systematic studies on the reproducibility of scientific results are surprisingly rare. Moreover, many modern statistical methods make use of 'random walk' model fitting procedures, and these are inherently stochastic in the...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/j.1365-294X.2012.05754.x
更新日期：2012-10-01 00:00:00
abstract：:Serpula himantioides (Boletales, Basidiomycota) produces thin resupinate basidiocarps on dead coniferous wood worldwide and causes damage in buildings as well. In this study, we present evidence for the existence of at least three phylogenetically defined cryptic species (referred to as Sib I-III) within the morphospe...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/j.1365-294X.2005.02768.x
更新日期：2006-02-01 00:00:00
abstract：:Genetic differentiation may exist among sympatric populations of a species due to long-term associations with alternative hosts (i.e. host-associated differentiation). While host-associated differentiation has been documented in several phytophagus insects, there are far fewer cases known in animal parasites. The bed ...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1111/mec.13086
更新日期：2015-03-01 00:00:00
abstract：:The mitochondrial pseudo-control region was analysed in five species of Aquila eagles. Indels caused great length differences in the nonrepetitive part of the region, whereas tandem repeat units were highly conserved among the genus. In a reconstructed phylogenetic tree, the clade formed by A. clanga and A. pomarina s...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1046/j.1365-294x.2002.01578.x
更新日期：2002-10-01 00:00:00
abstract：:Molecular markers have proved extremely useful in resolving mating patterns within individual populations of a number of species, but little is known about how genetic mating systems might vary geographically within a species. Here we use microsatellite markers to compare patterns of sneaked fertilization and mating s...
journal_title：Molecular ecology
pub_type： 杂志文章
doi：10.1046/j.1365-294x.2001.01193.x
更新日期：2001-02-01 00:00:00
