Dataset Information

Complete mitochondrial genome of the calanoid copepod Eurytemora affinis (Calanoida, Temoridae).

ABSTRACT: The complete mitochondrial genome was sequenced from the calanoid copepod Eurytemora affinis. The sequenced total genome size was 18,553?bp. The mitochondrial genome of E. affinis has 13 protein-coding genes (PCGs), two rRNAs, and 22 tRNAs. Of 13 PCGs, ND1, ND5, and ATP6 genes had incomplete stop codons TA-, T-, and TA-, respectively. Furthermore, the stop codons of the remaining eleven PCGs were TAG or TAA while the start codon of 13 PCGs was ATG (Cytb, ATP8, ATP6, and CO3 genes), ATT (CO1, ND2, ND3, ND4L, ND5, and ND6 genes), and ATA (ND1, ND4, and CO2 genes), respectively. The ratio of A?+?T and G?+?C nucleotides of 13 PCGs of E. affinis mitogenome showed 63.9% and 36.1%, respectively while those ratio of the entire sequences were 65.5% and 34.5%, respectively.

SUBMITTER: Choi BS

PROVIDER: S-EPMC7706584 | biostudies-literature | 2019 Jul

REPOSITORIES: biostudies-literature

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Complete mitochondrial genome of the calanoid copepod Eurytemora affinis (Calanoida, Temoridae).

Choi Beom-Soon BS Han Jeonghoon J Hwang Dae-Sik DS Souissi Sami S Hagiwara Atsushi A Lee Jae-Seong JS

Mitochondrial DNA. Part B, Resources 20190722 2

The complete mitochondrial genome was sequenced from the calanoid copepod Eurytemora affinis. The sequenced total genome size was 18,553 bp. The mitochondrial genome of E. affinis has 13 protein-coding genes (PCGs), two rRNAs, and 22 tRNAs. Of 13 PCGs, ND1, ND5, and ATP6 genes had incomplete stop codons TA-, T-, and TA-, respectively. Furthermore, the stop codons of the remaining eleven PCGs were TAG or TAA while the start codon of 13 PCGs was ATG (Cytb, ...[more]

PMID: 33365704

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Project description:Copepod females invest a quantity of resources in their reproduction. Depending on several biotic and abiotic factors and their evolutionary history a trade-off can be commonly observed between producing a large number of smaller offspring or a small number of larger offspring. In this study, a multi-generational approach was applied to determine whether a trade-off between clutch size and egg size existed in the copepod Eurytemora affinis under different controlled conditions of temperature and salinity. This protocol was based on the follow-up of reproductive (Clutch Size 'CS', Egg Diameter 'ED') and morphological (Prosome Length 'PL') traits during several generations. Copepods were acclimated to cold (7 °C) and warm (20 °C) temperatures, and then their reproductive output was tested at the higher temperature of 24 °C. CS and ED were positively correlated to PL, so as a first step linear regressions between each reproductive trait and female PL were performed. The residuals from the regression lines of CS and ED with PL were calculated to remove the effect of female size. When the normalized data (residuals) of CS and ED plotted together a negative relationship between egg size and egg number revealed the existence of a trade-off. Copepod populations initially acclimated to cold temperature are commonly characterized by relatively smaller CS and larger ED. Conversely, warm temperature adapted females produced relatively larger CS and smaller ED. After transfer to a temperature of 24 °C, the ED did not change but the CS showed high variability indicating stressful conditions and no trade-off was observed. These observations suggest that E. affinis is able to modulate its reproduction depending on the encountered temperature. It seems that this copepod species can shift between a K- and an r-strategy in response to colder or warmer conditions. In a late winter-early spring like cold temperature, copepod females seem to invest more on offspring quality by producing relatively larger eggs. This ecological strategy ensures a high recruitment of the spring generation that is responsible for the strength of the maximum population size usually observed in late spring-early summer (May-June). To the contrary, at summer-like temperature, where the population density decreases significantly in the Seine estuary, copepod females seem to switch from K to r strategy by favoring offspring number compared to offspring size. Finally, the use of a higher temperature of 24 °C seems to disrupt the observed reproductive trade-off even after several generations. These results suggest that a switching between K- or r-strategy of E. affinis depends highly on temperature effects. The effect of salinity increase during a summer-like temperature of 20 °C as well as after transfer to 24 °C decreased PL and CS but the ED did not change significantly.

Project description:Intraspecific variation in body pigmentation is an ecologically and evolutionary important trait; however, the pigmentation related trade-offs in marine zooplankton are poorly understood. We tested the effects of intrapopulation phenotypic variation in the pigmentation of the copepod Eurytemora affinis on predation risk, foraging, growth, metabolic activity and antioxidant capacity. Using pigmented and unpigmented specimens, we compared (1) predation and selectivity by the invertebrate predator Cercopagis pengoi, (2) feeding activity of the copepods measured as grazing rate in experiments and gut fluorescence in situ, (3) metabolic activity assayed as RNA:DNA ratio in both experimental and field-collected copepods, (4) reproductive output estimated as egg ratio in the population, and (5) total antioxidant capacity. Moreover, mitochondrial DNA (mtDNA) COI gene variation was analysed. The pigmented individuals were at higher predation risk as evidenced by significantly higher predation rate by C. pengoi on pigmented individuals and positive selection by the predator fed pigmented and unpigmented copepods in a mixture. However, the antioxidant capacity, RNA:DNA and egg ratio values were significantly higher in the pigmented copepods, whereas neither feeding rate nor gut fluorescence differed between the pigmented and unpigmented copepods. The phenotypic variation in pigmentation was not associated with any specific mtDNA genotype. Together, these results support the metabolic stimulation hypothesis to explain variation in E. affinis pigmentation, which translates into beneficial increase in growth via enhanced metabolism and antioxidant protective capacity, together with disadvantageous increase in predation risk. We also suggest an alternative mechanism for the metabolic stimulation via elevated antioxidant levels as a primary means of increasing metabolism without the increase in heat absorbance. The observed trade-offs are relevant to evolutionary mechanisms underlying plasticity and adaptation and have the capacity to modify strength of complex trophic interactions.

Project description:Chemical contamination is a common threat to biota thriving in estuarine and coastal ecosystems. In particular, trace metals tend to accumulate and exert deleterious effects on small invertebrates such as zooplankton, which are essential trophic links between phytoplankton and higher-level consumers in aquatic food webs. Beyond the direct effects of the contamination, we hypothesized that metal exposure could also affect the zooplankton microbiota, which in turn might further impair host fitness. To assess this assumption, copepods (Eurytemora affinis) were sampled in the oligo-mesohaline zone of the Seine estuary and exposed to dissolved copper (25 µg.L-1) over a 72-hour time period. Copepod response to copper treatment was assessed by determining transcriptomic changes in E. affinis along with shifts in its microbiota. Unexpectedly, very few genes were differentially expressed in copper-treated copepods compared to controls, with most of the reported differences involving genes upregulated in males compared to females. In contrast, copper increased the taxonomic diversity indices of the microbiota and resulted in substantial compositional changes at both the phyla and genus levels. Phylogenetic reconstruction of the microbiota further suggested that copper mitigated phylogenetic relatedness of taxa at the basal tree structure of the phylogeny, whereas it strengthened it at the terminal branches. Increased terminal phylogenetic clustering in copper-treated copepods concurred with higher proportions of bacterial genera previously identified as copper resistant (e.g., Pseudomonas, Acinetobacter, and Alkanindiges) and a higher relative abundance of the copA gene encoding a periplasmic inducible multi-copper oxidase. Overall, these results revealed very contrasting responses of E. affinis and its microbiota to copper exposure. The enrichment in micro-organisms likely to perform copper sequestration and/or enzymatic transformation processes, underlines here the need to follow the microbial component during the evaluation of the vulnerability of the zooplankton to the metallic stress.

Dataset Information

Complete mitochondrial genome of the calanoid copepod Eurytemora affinis (Calanoida, Temoridae).

Publications

Complete mitochondrial genome of the calanoid copepod <i>Eurytemora affinis</i> (Calanoida, Temoridae).

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