ArticleBMC genomics2011
A gene-based SNP resource and linkage map for the copepod Tigriopus californicus.
Article in BMC genomics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- Variance components of sex determination in the copepodEcology and evolution · 2023Article
- Genome-wide signatures of synergistic epistasis during parallel adaptation in a Baltic Sea copepod.Nature communications · 2022Article
- A genetic linkage map for the salmon louse (Lepeophtheirus salmonis): evidence for high male:female and inter-familial recombination rate differences.Molecular genetics and genomics : MGG · 2019Article
- Low recombination rates in sexual species and sex-asex transitions.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2017Article
- A high-density genetic map reveals variation in recombination rate across the genome of Daphnia magna.BMC genetics · 2016Article
- Chromosome-Wide Impacts on the Expression of Incompatibilities in Hybrids of Tigriopus californicus.G3 (Bethesda, Md.) · 2016Article
- Construction of a high density SNP linkage map of kelp (Saccharina japonica) by sequencing Taq I site associated DNA and mapping of a sex determining locus.BMC genomics · 2015Article
- Insight into genomic changes accompanying divergence: genetic linkage maps and synteny of Lucania goodei and L. parva reveal a Robertsonian fusion.G3 (Bethesda, Md.) · 2014Article
- Article
- Genetic positioning of centromeres through half-tetrad analysis in gynogenetic diploid families of the Zhikong scallop (Chlamys farreri).Marine biotechnology (New York, N.Y.) · 2013Article
- A first AFLP-based genetic linkage map for brine shrimp Artemia franciscana and its application in mapping the sex locus.PloS one · 2013Article
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundAs yet, few genomic resources have been developed in crustaceans. This lack is particularly evident in Copepoda, given the extraordinary numerical abundance, and taxonomic and ecological diversity of this group. Tigriopus californicus is ideally suited to serve as a genetic model copepod and has been the subject of extensive work in environmental stress and reproductive isolation. Accordingly, we set out to develop a broadly-useful panel of genetic markers and to construct a linkage map dense enough for quantitative trait locus detection in an interval mapping framework for T. californicus--a first for copepods.
resultsOne hundred and ninety Single Nucleotide Polymorphisms (SNPs) were used to genotype our mapping population of 250 F2 larvae. We were able to construct a linkage map with an average intermarker distance of 1.8 cM, and a maximum intermarker distance of 10.3 cM. All markers were assembled into linkage groups, and the 12 linkage groups corresponded to the 12 known chromosomes of T. californicus. We estimate a total genome size of 401.0 cM, and a total coverage of 73.7%. Seventy five percent of the mapped markers were detected in 9 additional populations of T. californicus. Of available model arthropod genomes, we were able to show more colocalized pairs of homologues between T. californicus and the honeybee Apis mellifera, than expected by chance, suggesting preserved macrosynteny between Hymenoptera and Copepoda.
conclusionsOur study provides an abundance of linked markers spanning all chromosomes. Many of these markers are also found in multiple populations of T. californicus, and in two other species in the genus. The genomic resource we have developed will enable mapping throughout the geographical range of this species and in closely related species. This linkage map will facilitate genome sequencing, mapping and assembly in an ecologically and taxonomically interesting group for which genomic resources are currently under development.
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