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Teng J, Zhao J, Sun C, Shan E, Wang M, Wang Q. First record of microplastics in the Gigantidas platifrons (Mytilidae: Bathymodiolus) and Shinkaia crosnieri (Munidopsidae: Shinkaia) from cold-seep in the South China Sea. MARINE POLLUTION BULLETIN 2023; 187:114523. [PMID: 36580837 DOI: 10.1016/j.marpolbul.2022.114523] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/01/2022] [Revised: 12/15/2022] [Accepted: 12/19/2022] [Indexed: 06/17/2023]
Abstract
The deep sea is considered the final sink for microplastics (MPs) pollution in marine environments. Despite MPs being consumed by many organisms, their presence in cold-seep organisms remains unclear. At cold seep site F in the South China Sea, which lies 1155 m deep, MPs were investigated in Gigantidas platifrons and Shinkaia crosnieri, both ecologically important species. Microplastics ingestion rates were 80.98 % and 81.25 % in G. platifrons and S. crosnieri, respectively. The average MPs abundance for G. platifrons and S. crosnieri was 2.80 ± 0.69 MPs/ind (2.20 ± 2.75 MPs/g) and 2.30 ± 0.27 MPs/ind (4.74 ± 3.08 MPs/g), with no significant difference between species. There were predominantly fibrous MPs ingested by cold-seep organisms, sized 500-1000 μm, blue in color, and polyethylene terephthalate and cellophane in composition. The results confirm the presence of MPs in cold-seep organisms in the South China Sea, providing further evidence that MP pollution exists in the deep sea.
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Affiliation(s)
- Jia Teng
- Research and Development Center for Efficient Utilization of Coastal Bioresources, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai 264003, PR China; Center for Ocean Mega-science, Chinese Academy of Sciences, Qingdao, Shandong 266071, PR China; Muping Coastal Environment Research Station, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai 264003, PR China
| | - Jianmin Zhao
- Research and Development Center for Efficient Utilization of Coastal Bioresources, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai 264003, PR China; Center for Ocean Mega-science, Chinese Academy of Sciences, Qingdao, Shandong 266071, PR China; Muping Coastal Environment Research Station, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai 264003, PR China
| | - Chaofan Sun
- Research and Development Center for Efficient Utilization of Coastal Bioresources, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai 264003, PR China; Center for Ocean Mega-science, Chinese Academy of Sciences, Qingdao, Shandong 266071, PR China; Muping Coastal Environment Research Station, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai 264003, PR China; University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Encui Shan
- Research and Development Center for Efficient Utilization of Coastal Bioresources, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai 264003, PR China; Center for Ocean Mega-science, Chinese Academy of Sciences, Qingdao, Shandong 266071, PR China; Muping Coastal Environment Research Station, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai 264003, PR China; University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Minxiao Wang
- Key Laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, PR China.
| | - Qing Wang
- Research and Development Center for Efficient Utilization of Coastal Bioresources, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai 264003, PR China; Center for Ocean Mega-science, Chinese Academy of Sciences, Qingdao, Shandong 266071, PR China; Muping Coastal Environment Research Station, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai 264003, PR China.
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Zapelloni F, Jurado-Rivera JA, Jaume D, Juan C, Pons J. Comparative Mitogenomics in Hyalella (Amphipoda: Crustacea). Genes (Basel) 2021; 12:genes12020292. [PMID: 33669879 PMCID: PMC7923271 DOI: 10.3390/genes12020292] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2021] [Revised: 02/16/2021] [Accepted: 02/17/2021] [Indexed: 02/02/2023] Open
Abstract
We present the sequencing and comparative analysis of 17 mitochondrial genomes of Nearctic and Neotropical amphipods of the genus Hyalella, most from the Andean Altiplano. The mitogenomes obtained comprised the usual 37 gene-set of the metazoan mitochondrial genome showing a gene rearrangement (a reverse transposition and a reversal) between the North and South American Hyalella mitogenomes. Hyalella mitochondrial genomes show the typical AT-richness and strong nucleotide bias among codon sites and strands of pancrustaceans. Protein-coding sequences are biased towards AT-rich codons, with a preference for leucine and serine amino acids. Numerous base changes (539) were found in tRNA stems, with 103 classified as fully compensatory, 253 hemi-compensatory and the remaining base mismatches and indels. Most compensatory Watson–Crick switches were AU -> GC linked in the same haplotype, whereas most hemi-compensatory changes resulted in wobble GU and a few AC pairs. These results suggest a pairing fitness increase in tRNAs after crossing low fitness valleys. Branch-site level models detected positive selection for several amino acid positions in up to eight mitochondrial genes, with atp6 and nad5 as the genes displaying more sites under selection.
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Affiliation(s)
- Francesco Zapelloni
- Department of Biology, University of the Balearic Islands, Ctra. Valldemossa km 7,5, 07122 Palma, Spain; (F.Z.); (J.A.J.-R.); (C.J.)
| | - José A. Jurado-Rivera
- Department of Biology, University of the Balearic Islands, Ctra. Valldemossa km 7,5, 07122 Palma, Spain; (F.Z.); (J.A.J.-R.); (C.J.)
| | - Damià Jaume
- IMEDEA (CSIC-UIB), Mediterranean Institute for Advanced Studies, C/Miquel Marquès 21, 07190 Esporles, Spain;
| | - Carlos Juan
- Department of Biology, University of the Balearic Islands, Ctra. Valldemossa km 7,5, 07122 Palma, Spain; (F.Z.); (J.A.J.-R.); (C.J.)
- IMEDEA (CSIC-UIB), Mediterranean Institute for Advanced Studies, C/Miquel Marquès 21, 07190 Esporles, Spain;
| | - Joan Pons
- IMEDEA (CSIC-UIB), Mediterranean Institute for Advanced Studies, C/Miquel Marquès 21, 07190 Esporles, Spain;
- Correspondence: ; Tel.: +34-971-173-332
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Shen Y, Kou Q, Zhong Z, Li X, He L, He S, Gan X. The first complete mitogenome of the South China deep-sea giant isopod Bathynomus sp. (Crustacea: Isopoda: Cirolanidae) allows insights into the early mitogenomic evolution of isopods. Ecol Evol 2017; 7:1869-1881. [PMID: 28331594 PMCID: PMC5355201 DOI: 10.1002/ece3.2737] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2016] [Revised: 11/07/2016] [Accepted: 12/21/2016] [Indexed: 12/02/2022] Open
Abstract
In this study, the complete mitochondrial (mt) genome sequence of the South China deep‐sea giant isopod Bathynomus sp. was determined, and this study is the first to explore in detail the mt genome of a deep‐sea member of the order Isopoda. This species belongs to the genus Bathynomus, the members of which are saprophagous residents of the deep‐sea benthic environment; based on their large size, Bathynomus is included in the “supergiant group” of isopods. The mt genome of Bathynomus sp. is 14,965 bp in length and consists of 13 protein‐coding genes, two ribosomal RNA genes, only 18 transfer RNA genes, and a noncoding control region 362 bp in length, which is the smallest control region discovered in Isopoda to date. Although the overall genome organization is typical for metazoans, the mt genome of Bathynomus sp. shows a number of derived characters, such as an inversion of 10 genes when compared to the pancrustacean ground pattern. Rearrangements in some genes (e.g., cob, trnT, nad5, and trnF) are shared by nearly all isopod mt genomes analyzed thus far, and when compared to the putative isopod ground pattern, five rearrangements were found in Bathynomus sp. Two tRNAs exhibit modified secondary structures: The TΨC arm is absent from trnQ, and trnC lacks the DHU. Within the class Malacostraca, trnC arm loss is only found in other isopods. Phylogenetic analysis revealed that Bathynomus sp. (Cymothoida) and Sphaeroma serratum (Sphaeromatidea) form a single clade, although it is unclear whether Cymothoida is monophyletic or paraphyletic. Moreover, the evolutionary rate of Bathynomus sp. (dN/dS [nonsynonymous mutational rate/synonymous mutational rate] = 0.0705) is the slowest measured to date among Cymothoida, which may be associated with its relatively constant deep‐sea environment. Overall, our results may provide useful information for understanding the evolution of deep‐sea Isopoda species.
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Affiliation(s)
- Yanjun Shen
- The Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences Institute of Hydrobiology Chinese Academy of Sciences Wuhan Hubei China; University of Chinese Academy of Sciences Beijing China
| | - Qi Kou
- Institute of Oceanology Chinese Academy of Sciences Qingdao China
| | - Zaixuan Zhong
- The Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences Institute of Hydrobiology Chinese Academy of Sciences Wuhan Hubei China; University of Chinese Academy of Sciences Beijing China
| | - Xinzheng Li
- Institute of Oceanology Chinese Academy of Sciences Qingdao China
| | - Lisheng He
- Institute of Deep-sea Science and Engineering Chinese Academy of Sciences Sanya China
| | - Shunping He
- The Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences Institute of Hydrobiology Chinese Academy of Sciences Wuhan Hubei China
| | - Xiaoni Gan
- The Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences Institute of Hydrobiology Chinese Academy of Sciences Wuhan Hubei China
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Yang JS, Lu B, Chen DF, Yu YQ, Yang F, Nagasawa H, Tsuchida S, Fujiwara Y, Yang WJ. When Did Decapods Invade Hydrothermal Vents? Clues from the Western Pacific and Indian Oceans. Mol Biol Evol 2012; 30:305-9. [DOI: 10.1093/molbev/mss224] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
Abstract
Hydrothermal vents are typically located in midocean ridges and back-arc basins and are usually generated by the movement of tectonic plates. Life thrives in these environments despite the extreme conditions. In addition to chemoautotrophic bacteria, decapod crustaceans are dominant in many of the hydrothermal vents discovered to date. Contrary to the hypothesis that these species are remnants of relic fauna, increasing evidence supports the notion that hydrothermal vent decapods have diversified in more recent times with previous research attributing the origin of alvinocarid shrimps to the Miocene. This study investigated seven representative decapod species from four hydrothermal vents throughout the Western Pacific and Indian Oceans. A partitioned mix-model phylogenomic analysis of mitochondrial DNA produced a consistent phylogenetic topology of these vent-endemic species. Additionally, molecular dating analysis calibrated using multiple fossils suggested that both bythograeid crabs and alvinocarid shrimps originated in the late Mesozoic and early Cenozoic. Although of limited sampling, our estimates support the extinction/repopulation hypothesis, which postulates recent diversification times for most hydrothermal vent species due to their mass extinction by global deep-water anoxic/dysoxic events during the Late Cretaceous and Early Tertiary. The continental-derived property of the West Pacific province is compatible with the possibility that vent decapods diversified from ancestors from shallow-water regions such as cold seeps. Our results move us a step closer toward understanding the evolutionary origin of hydrothermal vent species and their distribution in the Western Pacific–Indian Ocean Region.
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