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Mitochondrial genomes of the key zooplankton copepods Arctic Calanus glacialis and North Atlantic Calanus finmarchicus with the longest crustacean non-coding regions.

https://arctichealth.org/en/permalink/ahliterature301809
Source
Sci Rep. 2017 10 20; 7(1):13702
Publication Type
Journal Article
Research Support, Non-U.S. Gov't
Date
10-20-2017
Author
Agata Weydmann
Aleksandra Przylucka
Marek Lubosny
Katarzyna S Walczynska
Ester A Serrão
Gareth A Pearson
Artur Burzynski
Author Affiliation
Institute of Oceanology, Polish Academy of Sciences, Sopot, 81-712, Poland. agataw@ug.edu.pl.
Source
Sci Rep. 2017 10 20; 7(1):13702
Date
10-20-2017
Language
English
Publication Type
Journal Article
Research Support, Non-U.S. Gov't
Keywords
Animals
Arctic Regions
Copepoda - genetics
Evolution, Molecular
Genome, Mitochondrial
Zooplankton - genetics
Abstract
We determined the nearly complete mitochondrial genomes of the Arctic Calanus glacialis and its North Atlantic sibling Calanus finmarchicus, which are key zooplankton components in marine ecosystems. The sequenced part of C. glacialis mitogenome is 27,342?bp long and consists of two contigs, while for C. finmarchicus it is 29,462?bp and six contigs, what makes them the longest reported copepod mitogenomes. The typical set of metazoan mitochondrial genes is present in these mitogenomes, although the non-coding regions (NCRs) are unusually long and complex. The mitogenomes of the closest species C. glacialis and C. finmarchicus, followed by the North Pacific C. sinicus, are structurally similar and differ from the much more typical of deep-water, Arctic C. hyperboreus. This evolutionary trend for the expansion of NCRs within the Calanus mitogenomes increases mitochondrial DNA density, what resulted in its similar density to the nuclear genome. Given large differences in the length and structure of C. glacialis and C. finmarchicus mitogenomes, we conclude that the species are genetically distinct and thus cannot hybridize. The molecular resources presented here: the mitogenomic and rDNA sequences, and the database of repetitive elements should facilitate the development of genetic markers suitable in pursuing evolutionary research in copepods.
PubMed ID
29057900 View in PubMed
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[MtDNA Polymorphism of Lake Baikal Epischura--A Key Endemic Species of the Plankton Community].

https://arctichealth.org/en/permalink/ahliterature268692
Source
Genetika. 2015 Sep;51(9):1087-90
Publication Type
Article
Date
Sep-2015
Author
I Yu Zaidikov
T Yu Maior
L V Sukhanova
S V Kirilchik
E Yu Naumova
Source
Genetika. 2015 Sep;51(9):1087-90
Date
Sep-2015
Language
Russian
Publication Type
Article
Keywords
Animals
Copepoda - genetics
DNA, Mitochondrial - genetics
Lakes
Polymorphism, Genetic
Siberia
Zooplankton - genetics
Abstract
The population structure of Epischura baicalensis Sars (Copepoda, Calanoida), one of the key endemic species of the plankton community of Lake Baikal was studied. An analysis of mitochondrial DNA polymorphism revealed no genetic differences between Epischura sampled in the different basins of the lake or in the winter-spring/summer generations. Baikal Epischura is represented by a single panmictic population with a high level of mtDNA haplotype diversity.
PubMed ID
26606806 View in PubMed
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Regional heterogeneity impacts gene expression in the subarctic zooplankter Neocalanus flemingeri in the northern Gulf of Alaska.

https://arctichealth.org/en/permalink/ahliterature309174
Source
Commun Biol. 2019; 2:324
Publication Type
Journal Article
Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, Non-P.H.S.
Date
2019
Author
Vittoria Roncalli
Matthew C Cieslak
Martina Germano
Russell R Hopcroft
Petra H Lenz
Author Affiliation
1Pacific Biosciences Research Center, University of Hawai'i at Manoa, 1993 East-West Rd., Honolulu, HI 96822 USA.
Source
Commun Biol. 2019; 2:324
Date
2019
Language
English
Publication Type
Journal Article
Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, Non-P.H.S.
Keywords
Alaska
Animals
Arctic Regions
Chlorophyll A - metabolism
Cluster analysis
Copepoda - genetics
Gene Expression Regulation
Gene Ontology
Lipid Metabolism - genetics
RNA, Messenger - genetics - metabolism
Salinity
Temperature
Zooplankton - genetics
Abstract
Marine pelagic species are being increasingly challenged by environmental change. Their ability to persist will depend on their capacity for physiological acclimatization. Little is known about limits of physiological plasticity in key species at the base of the food web. Here we investigate the capacity for acclimatization in the copepod Neocalanus flemingeri, which inhabits the Gulf of Alaska, a heterogeneous and highly seasonal environment. RNA-Seq analysis of field-collected pre-adults identified large regional differences in expression of genes involved in metabolic and developmental processes and response to stressors. We found that lipid synthesis genes were up-regulated in individuals from Prince William Sound and down-regulated in the Gulf of Alaska. Up-regulation of lipid catabolic genes in offshore individuals suggests they are experiencing nutritional deficits. The expression differences demonstrate physiological plasticity in response to a steep gradient in food availability. Our transcriptional analysis reveals mechanisms of acclimatization that likely contribute to the observed resilience of this population.
PubMed ID
31482143 View in PubMed
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Temperature gradient affects differentiation of gene expression and SNP allele frequencies in the dominant Lake Baikal zooplankton species.

https://arctichealth.org/en/permalink/ahliterature300368
Source
Mol Ecol. 2018 06; 27(11):2544-2559
Publication Type
Journal Article
Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, Non-P.H.S.
Date
06-2018
Author
Larry L Bowman
Elizaveta S Kondrateva
Maxim A Timofeyev
Lev Y Yampolsky
Author Affiliation
Department of Biological Sciences, East Tennessee State University, Johnson City, Tennessee.
Source
Mol Ecol. 2018 06; 27(11):2544-2559
Date
06-2018
Language
English
Publication Type
Journal Article
Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, Non-P.H.S.
Keywords
Adaptation, Physiological - genetics
Animals
Arthropods - genetics
Copepoda - genetics
Gene Expression - genetics
Gene Frequency - genetics
Lakes
Polymorphism, Single Nucleotide - genetics
Species Specificity
Temperature
Zooplankton - genetics
Abstract
Local adaptation and phenotypic plasticity are main mechanisms of organisms' resilience in changing environments. Both are affected by gene flow and are expected to be weak in zooplankton populations inhabiting large continuous water bodies and strongly affected by currents. Lake Baikal, the deepest and one of the coldest lakes on Earth, experienced epilimnion temperature increase during the last 100 years, exposing Baikal's zooplankton to novel selective pressures. We obtained a partial transcriptome of Epischura baikalensis (Copepoda: Calanoida), the dominant component of Baikal's zooplankton, and estimated SNP allele frequencies and transcript abundances in samples from regions of Baikal that differ in multiyear average surface temperatures. The strongest signal in both SNP and transcript abundance differentiation is the SW-NE gradient along the 600+ km long axis of the lake, suggesting isolation by distance. SNP differentiation is stronger for nonsynonymous than synonymous SNPs and is paralleled by differential survival during a laboratory exposure to increased temperature, indicating directional selection operating on the temperature gradient. Transcript abundance, generally collinear with the SNP differentiation, shows samples from the warmest, less deep location clustering together with the southernmost samples. Differential expression is more frequent among transcripts orthologous to candidate thermal response genes previously identified in model arthropods, including genes encoding cytoskeleton proteins, heat-shock proteins, proteases, enzymes of central energy metabolism, lipid and antioxidant pathways. We conclude that the pivotal endemic zooplankton species in Lake Baikal exists under temperature-mediated selection and possesses both genetic variation and plasticity to respond to novel temperature-related environmental pressures.
PubMed ID
29691934 View in PubMed
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