Relationships and Evolution of Lumpsuckers of the Family Cyclopteridae (Cottoidei)

Воскобойникова, О. С.; Kudryavtseva, O. Yu.; Орлов, А. М.; Orlova, S. Yu.; Назаркин, М. В.; Чернова, Н. В.; Мазникова, О. А.

doi:10.1134/s0032945220020204

Cited by 10 publications

(3 citation statements)

References 20 publications

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“…Previous fishing for lumpfish focused on sex‐specific harvest for roe as a caviar substitute, but recently harvest has increased due to their use as a biological control for sea lice in Atlantic salmon aquaculture, leading to the development of lumpfish aquaculture and breeding programmes (Davenport, 1985; Imsland et al, 2014, 2015; Powell et al, 2018). Lumpfish is the only species in the genus Cyclopterus , which along with Liparis is basal to the family Cycloptteriae (Voskoboinikova et al, 2020). Although important to the conservation management and development of breeding programmes, little is currently known about sex determination in lumpfish and sex‐specific markers have not been developed.…”

Section: Introductionmentioning

confidence: 99%

Reference genome of lumpfish Cyclopterus lumpus Linnaeus provides evidence of male heterogametic sex determination through the AMH pathway

Holborn

Einfeldt

Kess

et al. 2022

Molecular Ecology Resources

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Teleosts exhibit extensive diversity of sex determination (SD) systems and mechanisms, providing the opportunity to study the evolution of SD and sex chromosomes. Here we sequenced the genome of the common lumpfish (Cyclopterus lumpus Linnaeus), a species of increasing importance to aquaculture, and identified the SD region and master SD locus using a 70 K single nucleotide polymorphism array and tissue‐specific expression data. The chromosome‐level assembly identified 25 diploid chromosomes with a total size of 572.89 Mb, a scaffold N50 of 23.86 Mb and genome annotation‐predicted 21,480 protein‐coding genes. Genome‐wide association analysis located a highly sex‐associated region on chromosome 13, suggesting that anti‐Müllerian hormone (AMH) is the putative SD factor. Linkage disequilibrium and heterozygosity across chromosome 13 support a proto‐XX/XY system, with an absence of widespread chromosome divergence between sexes. We identified three copies of AMH in the lumpfish primary and alternate haplotype assemblies localized in the SD region. Comparison to sequences from other teleosts suggested a monophyletic relationship and conservation within the Cottioidei. One AMH copy showed similarity to AMH/AMHY in a related species and was also the only copy with expression in testis tissue, suggesting this copy may be the functional copy of AMH in lumpfish. The two other copies arranged in tandem inverted duplication were highly similar, suggesting a recent duplication event. This study provides a resource for the study of early sex chromosome evolution and novel genomic resources that benefits lumpfish conservation management and aquaculture.

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Section: Introductionmentioning

confidence: 99%

Reference genome of lumpfish Cyclopterus lumpus Linnaeus provides evidence of male heterogametic sex determination through the AMH pathway

Holborn

Einfeldt

Kess

et al. 2022

Molecular Ecology Resources

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“…The lumpfish is a benthopelagic, cold-adapted marine species found throughout the North Atlantic that is characterised by a globose body, skin that is typically covered with tubercles, the pelvic fins modified to form a sucking disc, and the usual presence of two short dorsal fins [56][57][58]. Lumpfish are often found in low densities and dispersed over a vast geographical area, and adults are largely solitary with limited social interaction compared to schooling fish [56].…”

Section: Study Speciesmentioning

confidence: 99%

“…Spawning occurs annually between late spring and early summer (April to May) in shallow coastal waters, where males establish territory and nesting sites prior to the arrival of females, and subsequent to their arrival and effective egg laying in the nests, males fertilise and guard the eggs until they hatch [56]. During brooding, the male is the sole provider of the care that is necessary for offspring survival (i.e., paternal care), and after hatching, the larvae attach to substrates (e.g., seaweed and floating seaweed clumps) via the sucking disc [56,58]. Juveniles remain in shallow water areas for approximately 6-12 months before gradually making their way to the feeding grounds offshore.…”

Section: Study Speciesmentioning

confidence: 99%

Genomic Signatures of Local Adaptation under High Gene Flow in Lumpfish—Implications for Broodstock Provenance Sourcing and Larval Production

Maduna,

Jónsdóttir,

Imsland

et al. 2023

Genes

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Aquaculture of the lumpfish (Cyclopterus lumpus L.) has become a large, lucrative industry owing to the escalating demand for “cleaner fish” to minimise sea lice infestations in Atlantic salmon mariculture farms. We used over 10K genome-wide single nucleotide polymorphisms (SNPs) to investigate the spatial patterns of genomic variation in the lumpfish along the coast of Norway and across the North Atlantic. Moreover, we applied three genome scans for outliers and two genotype–environment association tests to assess the signatures and patterns of local adaptation under extensive gene flow. With our ‘global’ sampling regime, we found two major genetic groups of lumpfish, i.e., the western and eastern Atlantic. Regionally in Norway, we found marginal evidence of population structure, where the population genomic analysis revealed a small portion of individuals with a different genetic ancestry. Nevertheless, we found strong support for local adaption under high gene flow in the Norwegian lumpfish and identified over 380 high-confidence environment-associated loci linked to gene sets with a key role in biological processes associated with environmental pressures and embryonic development. Our results bridge population genetic/genomics studies with seascape genomics studies and will facilitate genome-enabled monitoring of the genetic impacts of escapees and allow for genetic-informed broodstock selection and management in Norway.

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Mitogenomics of the suborder Cottoidei (Teleostei: Perciformes): Improved assemblies, mitogenome features, phylogeny, and ecological implications

et al. 2022

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Relationships and Evolution of Lumpsuckers of the Family Cyclopteridae (Cottoidei)

Cited by 10 publications

References 20 publications

Reference genome of lumpfish Cyclopterus lumpus Linnaeus provides evidence of male heterogametic sex determination through the AMH pathway

Reference genome of lumpfish Cyclopterus lumpus Linnaeus provides evidence of male heterogametic sex determination through the AMH pathway

Genomic Signatures of Local Adaptation under High Gene Flow in Lumpfish—Implications for Broodstock Provenance Sourcing and Larval Production

Mitogenomics of the suborder Cottoidei (Teleostei: Perciformes): Improved assemblies, mitogenome features, phylogeny, and ecological implications

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