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Author

Camilo Salazar

Bio: Camilo Salazar is an academic researcher from Del Rosario University. The author has contributed to research in topics: Heliconius & Heliconius melpomene. The author has an hindex of 35, co-authored 78 publications receiving 5688 citations. Previous affiliations of Camilo Salazar include Smithsonian Tropical Research Institute & Leibniz Association.


Papers
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Journal ArticleDOI
Kanchon K. Dasmahapatra1, James R. Walters2, Adriana D. Briscoe3, John W. Davey, Annabel Whibley, Nicola J. Nadeau2, Aleksey V. Zimin4, Daniel S.T. Hughes5, Laura Ferguson5, Simon H. Martin2, Camilo Salazar2, Camilo Salazar6, James J. Lewis3, Sebastian Adler7, Seung-Joon Ahn8, Dean A. Baker9, Simon W. Baxter2, Nicola Chamberlain10, Ritika Chauhan11, Brian A. Counterman12, Tamas Dalmay11, Lawrence E. Gilbert13, Karl H.J. Gordon14, David G. Heckel8, Heather M. Hines5, Katharina J. Hoff7, Peter W. H. Holland5, Emmanuelle Jacquin-Joly15, Francis M. Jiggins, Robert T. Jones, Durrell D. Kapan16, Durrell D. Kapan17, Paul J. Kersey, Gerardo Lamas, Daniel Lawson, Daniel Mapleson11, Luana S. Maroja18, Arnaud Martin3, Simon Moxon19, William J. Palmer2, Riccardo Papa20, Alexie Papanicolaou14, Yannick Pauchet8, David A. Ray12, Neil Rosser1, Steven L. Salzberg21, Megan A. Supple22, Alison K. Surridge2, Ayşe Tenger-Trolander10, Heiko Vogel8, Paul A. Wilkinson23, Derek Wilson, James A. Yorke4, Furong Yuan3, Alexi Balmuth24, Cathlene Eland, Karim Gharbi, Marian Thomson, Richard A. Gibbs25, Yi Han25, Joy Jayaseelan25, Christie Kovar25, Tittu Mathew25, Donna M. Muzny25, Fiona Ongeri25, Ling-Ling Pu25, Jiaxin Qu25, Rebecca Thornton25, Kim C. Worley25, Yuanqing Wu25, Mauricio Linares26, Mark Blaxter, Richard H. ffrench-Constant27, Mathieu Joron, Marcus R. Kronforst10, Sean P. Mullen28, Robert D. Reed3, Steven E. Scherer25, Stephen Richards25, James Mallet1, James Mallet10, W. Owen McMillan, Chris D. Jiggins6, Chris D. Jiggins2 
05 Jul 2012-Nature
TL;DR: It is inferred that closely related Heliconius species exchange protective colour-pattern genes promiscuously, implying that hybridization has an important role in adaptive radiation.
Abstract: Sequencing of the genome of the butterfly Heliconius melpomene shows that closely related Heliconius species exchange protective colour-pattern genes promiscuously.

1,103 citations

Journal ArticleDOI
TL;DR: Overall these results show that species divergence can occur in the face of persistent and genome-wide admixture over long periods of time.
Abstract: Most speciation events probably occur gradually, without complete and immediate reproductive isolation, but the full extent of gene flow between diverging species has rarely been characterized on a genome-wide scale. Documenting the extent and timing of admixture between diverging species can clarify the role of geographic isolation in speciation. Here we use new methodology to quantify admixture at different stages of divergence in Heliconius butterflies, based on whole-genome sequences of 31 individuals. Comparisons between sympatric and allopatric populations of H. melpomene, H. cydno, and H. timareta revealed a genome-wide trend of increased shared variation in sympatry, indicative of pervasive interspecific gene flow. Up to 40% of 100-kb genomic windows clustered by geography rather than by species, demonstrating that a very substantial fraction of the genome has been shared between sympatric species. Analyses of genetic variation shared over different time intervals suggested that admixture between these species has continued since early in speciation. Alleles shared between species during recent time intervals displayed higher levels of linkage disequilibrium than those shared over longer time intervals, suggesting that this admixture took place at multiple points during divergence and is probably ongoing. The signal of admixture was significantly reduced around loci controlling divergent wing patterns, as well as throughout the Z chromosome, consistent with strong selection for Mullerian mimicry and with known Z-linked hybrid incompatibility. Overall these results show that species divergence can occur in the face of persistent and genome-wide admixture over long periods of time.

604 citations

Journal ArticleDOI
08 Sep 2011-Nature
TL;DR: The results indicate that allelic combinations at known wing-patterning loci have become locked together in a polymorphic rearrangement at the P locus, forming a supergene that acts as a simple switch between complex adaptive phenotypes found in sympatry.
Abstract: Supergenes are tight clusters of loci that facilitate the co-segregation of adaptive variation, providing integrated control of complex adaptive phenotypes. Polymorphic supergenes, in which specific combinations of traits are maintained within a single population, were first described for 'pin' and 'thrum' floral types in Primula and Fagopyrum, but classic examples are also found in insect mimicry and snail morphology. Understanding the evolutionary mechanisms that generate these co-adapted gene sets, as well as the mode of limiting the production of unfit recombinant forms, remains a substantial challenge. Here we show that individual wing-pattern morphs in the polymorphic mimetic butterfly Heliconius numata are associated with different genomic rearrangements at the supergene locus P. These rearrangements tighten the genetic linkage between at least two colour-pattern loci that are known to recombine in closely related species, with complete suppression of recombination being observed in experimental crosses across a 400-kilobase interval containing at least 18 genes. In natural populations, notable patterns of linkage disequilibrium (LD) are observed across the entire P region. The resulting divergent haplotype clades and inversion breakpoints are found in complete association with wing-pattern morphs. Our results indicate that allelic combinations at known wing-patterning loci have become locked together in a polymorphic rearrangement at the P locus, forming a supergene that acts as a simple switch between complex adaptive phenotypes found in sympatry. These findings highlight how genomic rearrangements can have a central role in the coexistence of adaptive phenotypes involving several genes acting in concert, by locally limiting recombination and gene flow.

523 citations

Journal ArticleDOI
15 Jun 2006-Nature
TL;DR: It is shown that a hybrid trait in an animal species can directly cause reproductive isolation, and that the phenotype of H. heurippa reproductively isolates it from both parental species.
Abstract: Speciation is generally regarded to result from the splitting of a single lineage. An alternative is hybrid speciation, considered to be extremely rare, in which two distinct lineages contribute genes to a daughter species. Here we show that a hybrid trait in an animal species can directly cause reproductive isolation. The butterfly species Heliconius heurippa is known to have an intermediate morphology and a hybrid genome, and we have recreated its intermediate wing colour and pattern through laboratory crosses between H. melpomene, H. cydno and their F1 hybrids. We then used mate preference experiments to show that the phenotype of H. heurippa reproductively isolates it from both parental species. There is strong assortative mating between all three species, and in H. heurippa the wing pattern and colour elements derived from H. melpomene and H. cydno are both critical for mate recognition by males.

450 citations

Journal ArticleDOI
TL;DR: Analysis of the role of introgressive hybridisation in transferring adaptations between mimetic Heliconius butterflies, taking advantage of the recent identification of a gene regulating red wing patterns in this genus, finds an almost perfect genotype by phenotype association across four species.
Abstract: It is widely documented that hybridisation occurs between many closely related species, but the importance of introgression in adaptive evolution remains unclear, especially in animals. Here, we have examined the role of introgressive hybridisation in transferring adaptations between mimetic Heliconius butterflies, taking advantage of the recent identification of a gene regulating red wing patterns in this genus. By sequencing regions both linked and unlinked to the red colour locus, we found a region that displays an almost perfect genotype by phenotype association across four species, H. melpomene, H. cydno, H. timareta, and H. heurippa. This particular segment is located 70 kb downstream of the red colour specification gene optix, and coalescent analysis indicates repeated introgression of adaptive alleles from H. melpomene into the H. cydno species clade. Our analytical methods complement recent genome scale data for the same region and suggest adaptive introgression has a crucial role in generating adaptive wing colour diversity in this group of butterflies.

336 citations


Cited by
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Journal Article
Fumio Tajima1
30 Oct 1989-Genomics
TL;DR: It is suggested that the natural selection against large insertion/deletion is so weak that a large amount of variation is maintained in a population.

11,521 citations

Journal ArticleDOI
TL;DR: The expanded population genomics functions in Stacks will make it a useful tool to harness the newest generation of massively parallel genotyping data for ecological and evolutionary genetics.
Abstract: Massively parallel short-read sequencing technologies, coupled with powerful software platforms, are enabling investigators to analyse tens of thousands of genetic markers. This wealth of data is rapidly expanding and allowing biological questions to be addressed with unprecedented scope and precision. The sizes of the data sets are now posing significant data processing and analysis challenges. Here we describe an extension of the Stacks software package to efficiently use genotype-by-sequencing data for studies of populations of organisms. Stacks now produces core population genomic summary statistics and SNP-by-SNP statistical tests. These statistics can be analysed across a reference genome using a smoothed sliding window. Stacks also now provides several output formats for several commonly used downstream analysis packages. The expanded population genomics functions in Stacks will make it a useful tool to harness the newest generation of massively parallel genotyping data for ecological and evolutionary genetics.

2,958 citations

Journal ArticleDOI
TL;DR: Both BlastKOALA and GhostKOalA are automatic annotation servers for genome and metagenome sequences, which perform KO (KEGG Orthology) assignments to characterize individual gene functions and reconstruct KEGG pathways, BRITE hierarchies and K EGG modules to infer high-level functions of the organism or the ecosystem.

2,247 citations

Journal ArticleDOI
01 Nov 2012-Genetics
TL;DR: A suite of methods for learning about population mixtures are presented, implemented in a software package called ADMIXTOOLS, that support formal tests for whether mixture occurred and make it possible to infer proportions and dates of mixture.
Abstract: Population mixture is an important process in biology. We present a suite of methods for learning about population mixtures, implemented in a software package called ADMIXTOOLS, that support formal tests for whether mixture occurred and make it possible to infer proportions and dates of mixture. We also describe the development of a new single nucleotide polymorphism (SNP) array consisting of 629,433 sites with clearly documented ascertainment that was specifically designed for population genetic analyses and that we genotyped in 934 individuals from 53 diverse populations. To illustrate the methods, we give a number of examples that provide new insights about the history of human admixture. The most striking finding is a clear signal of admixture into northern Europe, with one ancestral population related to present-day Basques and Sardinians and the other related to present-day populations of northeast Asia and the Americas. This likely reflects a history of admixture between Neolithic migrants and the indigenous Mesolithic population of Europe, consistent with recent analyses of ancient bones from Sweden and the sequencing of the genome of the Tyrolean "Iceman."

1,877 citations