ArticleG3 (Bethesda, Md.)2013
A hybrid genetic linkage map of two ecologically and morphologically divergent Midas cichlid fishes (Amphilophus spp.) obtained by massively parallel DNA sequencing (ddRADSeq).
Article in G3 (Bethesda, Md.), 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers, 1 of them a synthesis that pooled it.
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Who cites it
39 citing papers in PubMed, 1 synthesis or guideline pooled it, 94 citations in OpenAlex.
- Evolutionary dynamics of pre- and postzygotic reproductive isolation in cichlid fishes.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2020Pooled it
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- Fine-tuning GBS data with comparison of reference and mock genome approaches for advancing genomic selection in less studied farmed species.BMC genomics · 2025Article
- Genetic approaches reveal a healthy population and an unexpectedly recent origin for an isolated desert spring fish.BMC ecology and evolution · 2024Article
- Facilitating population genomics of non-model organisms through optimized experimental design for reduced representation sequencing.BMC genomics · 2021Article
- A high-density genetic map construction and sex-related loci identification in Chinese Giant salamander.BMC genomics · 2021Article
- Contrasting Gene Decay in Subterranean Vertebrates: Insights from Cavefishes and Fossorial Mammals.Molecular biology and evolution · 2021Article
- Article
- Parallel and non-parallel changes of the gut microbiota during trophic diversification in repeated young adaptive radiations of sympatric cichlid fish.Microbiome · 2020Article
- Developing Single Nucleotide Polymorphisms for Identification of Cod Products by RAD-Seq.Animals : an open access journal from MDPI · 2020Article
- Identification of critical sex-biased genes in Andrias davidianus by de novo transcriptome.Molecular genetics and genomics : MGG · 2019Article
- RAD-seq reveals genetic structure of the FBMC plant biology · 2018Article
- Whole-genome sequences of Malawi cichlids reveal multiple radiations interconnected by gene flow.Nature ecology & evolution · 2018Article
- Concordant Changes in Gene Expression and Nucleotides Underlie Independent Adaptation to Hydrogen-Sulfide-Rich Environments.Genome biology and evolution · 2018Article
- Speciation in sympatry with ongoing secondary gene flow and a potential olfactory trigger in a radiation of Cameroon cichlids.Molecular ecology · 2018Article
- Lessons from a natural experiment: Allopatric morphological divergence and sympatric diversification in the Midas cichlid species complex are largely influenced by ecology in a deterministic way.Evolution letters · 2018Article
- Applications of genotyping by sequencing in aquaculture breeding and genetics.Reviews in aquaculture · 2018Review
- Double-digest RADseq loci using standard Illumina indexes improve deep and shallow phylogenetic resolution ofEcology and evolution · 2018Article
- High-Throughput Sequencing and Linkage Mapping of a Clownfish Genome Provide Insights on the Distribution of Molecular Players Involved in Sex Change.Scientific reports · 2018Article
- A Major and Stable QTL for Bacterial Wilt Resistance on Chromosome B02 Identified Using a High-Density SNP-Based Genetic Linkage Map in Cultivated Peanut Yuanza 9102 Derived Population.Frontiers in genetics · 2018Article
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3 authors at 1 institution in 1 country.
Funding
Abstract
Cichlid fishes are an excellent model system for studying speciation and the formation of adaptive radiations because of their tremendous species richness and astonishing phenotypic diversity. Most research has focused on African rift lake fishes, although Neotropical cichlid species display much variability as well. Almost one dozen species of the Midas cichlid species complex (Amphilophus spp.) have been described so far and have formed repeated adaptive radiations in several Nicaraguan crater lakes. Here we apply double-digest restriction-site associated DNA sequencing to obtain a high-density linkage map of an interspecific cross between the benthic Amphilophus astorquii and the limnetic Amphilophus zaliosus, which are sympatric species endemic to Crater Lake Apoyo, Nicaragua. A total of 755 RAD markers were genotyped in 343 F(2) hybrids. The map resolved 25 linkage groups and spans a total distance of 1427 cM with an average marker spacing distance of 1.95 cM, almost matching the total number of chromosomes (n = 24) in these species. Regions of segregation distortion were identified in five linkage groups. Based on the pedigree of parents to F(2) offspring, we calculated a genome-wide mutation rate of 6.6 × 10(-8) mutations per nucleotide per generation. This genetic map will facilitate the mapping of ecomorphologically relevant adaptive traits in the repeated phenotypes that evolved within the Midas cichlid lineage and, as the first linkage map of a Neotropical cichlid, facilitate comparative genomic analyses between African cichlids, Neotropical cichlids and other teleost fishes.
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