Genome‐ and transcriptome‐assisted development of nuclear insertion/deletion markers for <i><scp>C</scp>alanus</i> species (<scp>C</scp>opepoda: <scp>C</scp>alanoida) identification

Smolina, Irina; Kollias, Spyros; Poortvliet, Marloes; Nielsen, Torkel Gissel; Lindeque, Penelope K.; Castellani, Claudia; Møller, Eva Friis; Blanco-Bercial, Leocadio; Hoarau, Galice

doi:10.1111/1755-0998.12241

Cited by 34 publications

(55 citation statements)

References 46 publications

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“…Unfortunately, for various technical reasons, such data are currently unavailable for Calanus species. Active marker development is ongoing (Smolina et al 2014;Weydmann et al 2014), but is hampered by the atypical genome organization in Calanus. Also, using a single mitochondrial gene has some advantages: as a maternally inherited, haploid genome, it has a smaller effective population size and is more prone to bottleneck effects (Hartl and Clark 2007).…”

Section: Discussionmentioning

confidence: 99%

Postglacial expansion of the Arctic keystone copepod Calanus glacialis

et al. 2017

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Calanus glacialis, a major contributor to zooplankton biomass in the Arctic shelf seas, is a key link between primary production and higher trophic levels that may be sensitive to climate warming. The aim of this study was to explore genetic variation in contemporary populations of this species to infer possible changes during the Quaternary period, and to assess its population structure in both space and time. Calanus glacialis was sampled in the fjords of Spitsbergen (Hornsund and

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Section: Discussionmentioning

confidence: 99%

Postglacial expansion of the Arctic keystone copepod Calanus glacialis

et al. 2017

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“…To ensure correct species identification, C. finmarchicus and C. glacialis were genotyped for 3 microsatellite loci (EL696609, EL585922 and EH666870) (Provan et al 2007) or 6 insertion/ deletion (InDel) nuclear markers . Individuals were assigned to species (Table S1 in Supplement 2 at www.int-res.com/ articles/suppl/m534p079_supp.xls) in accordance with Smolina et al (2014).…”

Section: Rna/dna Extraction and Genetic Species Identificationmentioning

confidence: 99%

Contrasting transcriptome response to thermal stress in two key zooplankton species, Calanus finmarchicus and C. glacialis

Smolina¹,

Kollias²,

Møller³

et al. 2015

Mar. Ecol. Prog. Ser.

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Climate change has already led to the range expansion of warm-water plankton assemblages in the northeast Atlantic and the corresponding range contraction of colder-water species. The temperate copepod Calanus finmarchicus is predicted to shift farther northward into polar waters traditionally dominated by the arctic copepod C. glacialis. To identify temperaturemediated changes in gene expression that may be critical for the thermal acclimation and resilience of the 2 Calanus spp., we conducted a whole transcriptome profiling using RNA-seq on an Ion Torrent platform. Transcriptome responses of C. finmarchicus and C. glacialis from Disko Bay, west Greenland, were investigated under realistic thermal stresses (at + 5, +10 and +15°C) for 4 h and 6 d. C. finmarchicus showed a strong response to temperature and duration of stress, involving up-regulation of genes related to protein folding, transcription, translation and metabolism. In sharp contrast, C. glacialis displayed only low-magnitude changes in gene expression in response to temperature and duration of stress. Differences in the thermal responses of the 2 species, particularly the lack of thermal stress response in C. glacialis, are in line with laboratory and field observations and suggest a vulnerability of C. glacialis to climate change.

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“…In this study, we report the complete sequence of the mitochondrial genome of C. glacialis. We selected one C. glacialis individual from Sørfolda (Norwegian coast: 67 30 N, 15 28 E), which we identified as such using a set of nuclear molecular markers (Smolina et al 2014). Total DNA was extracted using the E.Z.N.A.…”

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confidence: 99%

The complete mitochondrial genome of the copepodCalanus glacialis

Choquet

Monteiro

Bengtsson‐Palme

et al. 2017

Mitochondrial DNA Part B

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Calanus glacialis, a marine planktonic copepod, is a keystone species in the Arctic Ocean. In this study, we shotgun sequenced the total DNA of one C. glacialis individual, using the NextSeq V R Illumina platform, in order to determine its mitochondrial genome sequence. We successfully assembled and annotated this 20,674 bp long sequence, which included 13 protein-coding genes, 2 rRNA genes and 22 tRNA genes. Common gene-coding regions of 19 other species were used to reconstruct a phylogenetic tree, using mitogenomes of the phylogenetically closest copepods available. The new resource described here constitutes a tool of interest for better understanding the structure and dynamics of C. glacialis populations.

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Genome‐ and transcriptome‐assisted development of nuclear insertion/deletion markers for Calanus species (Copepoda: Calanoida) identification

Cited by 34 publications

References 46 publications

Postglacial expansion of the Arctic keystone copepod Calanus glacialis

Postglacial expansion of the Arctic keystone copepod Calanus glacialis

Contrasting transcriptome response to thermal stress in two key zooplankton species, Calanus finmarchicus and C. glacialis

The complete mitochondrial genome of the copepodCalanus glacialis

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