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New record of the feather star Palaeocomatella hiwia(Echinodermata:Crinoidea:Comatulida)from Zhenbei Seamount in South China Sea:new insights into the taxonomic position of Palaeocomatella

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Journal of Oceanology and Limnology 2024年第1期42卷 244-251页

作者： shao’e SUN Zijie MEI zhongli sha Jing WANG Nansheng CHEN Department of Marine Organism Taxonomy and Phylogeny Institute of OceanologyChinese Academy of SciencesQingdao 266071China CAS Key Laboratory of Marine Ecology and Environmental Sciences Institute of OceanologyChinese Academy of SciencesQingdao 266071China Laoshan Laboratory Qingdao 266237China shandong Province Key Laboratory of Experimental Marine Biology Institute of OceanologyChinese Academy of SciencesQingdao 266071China Center for Ocean Mega-Science Chinese Academy of SciencesQingdao 266071China University of Chinese Academy of Sciences Beijing 100049China

One specimen belonging to the family Comatellinae was collected from the Zhenbei Seamount(332.5–478.2 m)in the South China Sea in July *** on the morphological characters,the specimen was identified as Palaeocomatella hiwia McKnight,*** is first recorded from China Sea and redescribed in *** specimen differs from the original description from New Zealand for never showing syzygy at br4+5 or br5+6 on interior and br1+2 on exterior ***,it is much conform to the redescription to specimens from Indonesia,with only differences in position of the second syzygy and distalmost pinnule *** is deposited in the Institute of Oceanology,Chinese Academy of *** analyses based on the mitochondrial c oxidase subunit I(COI)and 16S rRNA genes indicated that *** was nested within the tribe Phanogeniini and clustered with Aphanocomaster ***,*** showed same morphological features in terms of mouth placement,comb location,and number of comb teeth rows as other genera of ***,we suggest that the genus Palaeocomatella should be put in the tribe Phanogeniini.

关键词： new record Palaeocomatella hiwia McKnight 1977 South China Sea phylogenetic relationship taxonomy

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Five new records of Xanthidae(Crustacea:Brachyura)from Hainan Island,China

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Journal of Oceanology and Limnology 2022年第1期40卷 296-308页

作者： Ziming YUAN zhongli sha Wei JIANG Laboratory of Marine Organism Taxonomy and Phylogeny Institute of OceanologyChinese Academy of SciencesQingdao 266071China Laboratory for Marine Biology and Biotechnology Pilot National Laboratory for Marine Science and Technology(Qingdao)Qingdao 266237China Center for Ocean Mega-Science Chinese Academy of SciencesQingdao 266071China University of Chinese Academy of Sciences Beijing 100049China

Five new records of the family Xanthidae are reported from China:Hypocolpus haanii Rathbun,1909,Neoliomera variolosa(***-Edwards,1873),Leptodius australis Ward,1936,*** Ward,1941,and Xanthias joanneae Mendoza,*** specimens were collected from Hainan Island and deposited in the Marine Biological Museum,Chinese Academy of *** based on observation,photographs,line drawings,and some taxonomic discussions are provided.

关键词： morphology Xanthidae new records South China Sea taxonomy

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Medaeops Guinot,1967(Brachyura,Xanthidae)from China seas,with the resurrection of Medaeops japonicus(Rathbun,1898)

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Journal of Oceanology and Limnology 2023年第6期41卷 2403-2417页

作者： Ziming YUAN Wei JIANG zhongli sha Laboratory of Marine Organism Taxonomy and Phylogeny Qingdao Key Laboratory of Marine Biodiversity and ConservationInstitute of OceanologyChinese Academy of SciencesQingdao 266071China shandong Province Key Laboratory of Experimental Marine Biology Institute of OceanologyChinese Academy of SciencesQingdao 266071China Laoshan Laboratory Qingdao 266237China University of Chinese Academy of Sciences Beijing 100049China

The xanthid genus Medaeops Guinot,1967 currently contains seven species reported from the Indo-West Pacific ***,only one species,Medaeops granulosus(Haswell,1882),has been recorded from China seas and was once thought to be widespread in the Indo-West Pacific *** this study,two species of the Medaeops granulosus species-group were identified during the analysis on Medaeops crabs from China *** japonicus(Rathbun,1898),which had previously been considered a junior synonym of ***,is shown to be a distinct species that can be distinguished from *** by the lower first anterolateral tooth,the larger and concentrated granules on carapace dorsally,and the different shape of the male’s first *** addition,a new recorded species,Medaeops edwardsi Guinot,1967,was reported from China seas for the first time.A molecular analysis was conducted to determine the status of each species,and an updated key for species of the genus Medaeops was provided.

关键词： euxanthine Xanthoidea crab Decapoda DNA barcode

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Mitochondrial phylogenomics reveal the origin and adaptive evolution of the deep-sea caridean shrimps(Decapoda:Caridea)

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Journal of Oceanology and Limnology 2021年第5期39卷 1948-1960页

作者： shao’e SUN zhongli sha Yanrong WANG Deep Sea Research Center Institute of OceanologyChinese Academy ofSciencesQingdao 266071China Laboratory for Marine Biology and Biotechnology Pilot NationalLaboratory for Marine Science and Technology(Qingdao)Qingdao 266237China Center for Ocean Mega-Science Chinese Academy of SciencesQingdao266071China University of Chinese Academy of Sciences Beijing 100049China

The deep-sea is considered as the most extensive ecosystem on the *** is meaningful for elucidating the life origins by exploring the origin and adaptive genetic mechanisms of the large deepsea *** shrimps have colonized and successfully adapted to deep-sea *** provide an ideal model to analyze the origin and adaptive evolution of modern deep-sea ***,we conducted the phylogenetic analyses of mitocho ndrial genomes(mitogenomes)from carideans,including 11 newly sequences reported in this investigation to explore the habitat origins,divergence times,and adaptive evolution of deep-sea(seamounts and hydrothermal vents)caridean *** results showed that the species of deep-sea Caridea formed a monophyletic *** analysis supported that the deepsea caridean shrimps may originated from shallow *** hydrothermal vents alvinocaridid shrimps and Lebbeus shinkaiae from Thoridae underwent a second range expansion from seamounts to vent *** of divergence time showed that the caridean shrimps invaded into deep-sea at 147.75 *** divergence of most of the modern seamount and hydrothermal vent species are in the late Cretaceous/early *** may associate with the geological events of the Western Pacific,the climate change,and the global deep-water anoxic/dysoxic events during this ***-two potentially important adaptive residues were detected in the deep-sea shrimp lineage,which were located in atp6,atp8,cox1,cox3,cytb,nad2,nad4 l,and *** investigation adds our understanding of the evolutionary history of deep-sea caridean shrimps,and provides insights into the mitochondrial genetic basis of deep-sea adaptation in this group.

关键词： hydrothermal vents seamounts Caridea mitochondrial genome phylogenetic analysis evolutionary history

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Eyes of diff ering colors in Alvinocaris longirostris from deep-sea chemosynthetic ecosystems: genetic and molecular evidence of its formation mechanism

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Journal of Oceanology and Limnology 2021年第1期39卷 282-296页

作者： Qian XIN Min HUI Chaolun LI zhongli sha Institute of Oceanology Chinese Academy of SciencesQingdao 266071China Center for Ocean Mega-Science Chinese Academy of SciencesQingdao 266071China Laboratory for Marine Biology and Biotechnology Qingdao National Laboratory for Marine Science and TechnologyQingdao 266237China University of Chinese Academy of Sciences Beijing 100049China

Coloration is an important phenotypic trait for multiple adaptive *** is interesting to fi nd white-eye(AW)and orange-eye(AO)phenotypes in the shrimp Alvinocaris longirostris inhabiting the deep-sea cold seep and hydrothermal vent areas of the northwestern Pacifi *** comparative transcriptome analyses,1491 diff erentially expressed genes(DEGs)were identified between AW and *** them,many DEGs were associated with immunity,antioxidation,and detoxifi *** signifi cant enzyme encoding genes,xanthine dehydrogenase,and tryptophan oxidase involved in pigment biosynthesis pathways were up-regulated in AW and AO,respectively,which might be related to the diff erences of white and orange eye ***,single nucleotide polymorphism(SNP)calling detected that genotypes of 28 SNP distributing in 14 unigenes were completely diff erent between AW and ***,there were three and two non-synonymous mutations in immune genes crustin Pm5 and antimicrobial peptide,*** indicate that the diff erence in eye color is probably resulted from immune response to variable micro-environmental stressors encountered in the dispersal process of the shrimps,such as symbiotic microbes,pathogens,and toxic substances,and might be genetically fi xed at *** suggested pathway preliminarily explained the formation mechanism of diff erent eye phenotypes in Alvinocaridid shrimps,providing a basis for further study on adaptive evolution of eyes in deep-sea chemosynthetic faunas.

关键词： alvinocaridid shrimps cold seep and hydrothermal vent diff erentially expressed genes eye color single nucleotide polymorphism(SNP)mutation transcriptome

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Molecular phylogeny of the genus Clibanarius(Decapoda: Anomura: Diogenidae) based on mitochondrial and nuclear DNA sequences

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Journal of Oceanology and Limnology 2019年第5期37卷 1686-1697页

作者： LI Wenjie CHENG Jiao HUI Min sha zhongli Institute of Oceanology Chinese Academy of SciencesQingdao 266071China Center for Ocean Mega-Science Chinese Academy of SciencesQingdao 266071China Laboratory for Marine Biology and Biotechnology Qingdao National Laboratory for Marine Science and TechnologyQingdao 266237China University of Chinese Academy of Sciences Beijing 100049China

Clibanarius , a genus of hermit crabs, is one of the most diverse genera within Diogenidae. However, studies on the phylogeny within Clibanarius is very limited. We reconstruct the molecular phylogeny of the genus Clibanarius based on two mitochondrial (16S rRNA and COI) and two nuclear protein-coding (NaK and PEPCK) genes using a multigene phylogenetic approach. Eleven selected Clibanarius species from the Indo-West Pacifi c are analyzed and the Bayesian and maximum likelihood analyses produced identical results in topology. Results suggest that C . rutilus and C . infraspinatus are more closely related to each other than to C . snelliusi , and C . striolatus shows a close relationship to C . longitarsus . The close association of C . merguiensis with C . englaucus and C . humilis is strongly supported by the divergence of C . virescens from them. Our phylogenetic results contradict the morphological classifi cation scheme proposed for Clibanarius and indicate that the relative length of dactyls and propodi is not phylogenetically signifi cant in Clibanarius . In addition, we speculate that the morphological characteristic of the median cleft of the telson might be phylogenetically important for Clibanarius .

关键词： Clibanarius phylogeny molecular evolution

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Complete mitochondrial genomes of two deep-sea pandalid shrimps,Heterocarpus ensifer and Bitias brevis:insights into the phylogenetic position of Pandalidae(Decapoda:Caridea)

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Journal of Oceanology and Limnology 2020年第3期38卷 816-825页

作者： SUN shao’e CHENG Jiao SUN Song sha zhongli Department of Marine Organism Taxonomy and Phylogeny Institute of OceanologyChinese Academy of SciencesQingdao 266071China Deep Sea Research Center Institute of OceanologyChinese Academy of SciencesQingdao 266071China University of Chinese Academy of Sciences Beijing 100049China

The mitochondrial genome(mitogenome)analysis is a significant tool for investigating the evolutionary history of metazoan *** family Pandalidae is a diverse caridean group containing mainly deep-sea *** May 302019,only two complete mitogenomes are available in *** we present the complete mitogenome sequences of two deep-sea pandalid shrimps,Heterocarpus ensifer and Bitias brevis through Illumina *** mitochondrial genomes were determined to be 15939 bp and 15891 bp long,and both consist of 13 protein-coding genes(PCGs),23 transfer-RNA genes(tRNAs),two ribosomal-RNA genes(rRNAs),and one control *** nucleotide composition is biased toward adenine and ***,the gene contents and arrangements are consistent with the pancrustacean ground *** alignment of the control regions of four pandalids reveals a conserved sequence block(CSB)(104 bp in length,average GC%=29.47%and 69.23%similarity).A phylogenetic analysis based on 51 Caridea complete mitogenomes revealed that the deep-sea pandalid shrimps are situated an intermediate lineage,with a tendency to originated from those living in shallow sea area.

关键词： Pandalidae deep sea mitochondrial genome gene order phylogenetic relationships

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A Preliminary Phylogenetic Analysis of Luidia (Paxillosida: Luidiidae) from Chinese Waters with Cytochrome Oxidase Subunit I (COI) Sequences

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Journal of Ocean University of China 2013年第3期12卷 459-468页

作者： XIAO Ning LIU Ruiyu YUAN Shuai sha zhongli Institute of Oceanology Chinese Academy of Sciences University of Chinese Academy of Sciences shanxi Normal University

Luidia Forbes （Paxillosida： Luidiidae） are common soft bottom sea stars with 49 described species. Because of substan- tial morphological diversity, the taxonomy of the genus is complex and hasn＇t been resolved definitely. In order to resolve general taxonomic issues, and determine species boundaries and phylogenetic relationships within the genus Luidia, the sequences of tyro- chrome oxidase subunit I （COI） gene from 24 specimens of Luidia, belonging to eight taxa in Chinese waters, were studied. Three sequences of two species in genus Luidia from GenBank were used to analyze the phylogenetie relationships. The molecular phy- logeny exhibited three main clades, each with strong bootstrap support： Clade A including Luidia quinaria from the Sea of Japan; Clade B including seven nominal species （L. quinaria von Martens, L. yesoensis Goto, L. ehangi Liu, Liao and Li, L. orientalis Fisher, L. avicularia Fisher, L. longispina Sladen and L. hardwicki Gray） from Chinese waters; and Clade C including L. maculata Miiller ＆ Troschel from Chinese waters. Our molecular phylogeny results support the morphological Quinaria-Group and Alter- nata-Group assigned by D6derlein. Seven nominal species we sampled do not exhibit genetic distances that are large enough to rec- ognize them as separate species. Cryptic species may exist in ＇Luidia quinaria＇ from the Yellow Sea and the Sea of Japan. Meaning- ful morphological characters need further investigation in Luidia.

关键词： Echinodermata Luidia China DNA taxonomy cryptic species

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Are Acila divaricata and Acila mirabilis One Species or Two Distinct Species? Evidence from COI Mitochondrial DNA

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Journal of Ocean University of China 2014年第2期13卷 283-289页

作者： ZHANG Junlong SHI Huafeng XU Fengshan sha zhongli Institute of Oceanology Chinese Academy of Sciences

Acila divaricata （Hinds, 1843） and A. mirabilis （Adams and Reeve, 1850） are common benthic bivalves in China. A number of researchers have proposed that the latter species is a junior synonym of the former species. Because of morphological similarities, it is difficult to distinguish these two species based on visual examination only. For better understanding of their taxon-omy, the mitochondrial CO1 gene fragments of five individuals of A. divaricata from the East China Sea and six individuals of A. mirabilis from the Yellow Sea were sequenced in this study. The phylogenetic relationships of the obtained COI sequences, together with nineteen sequences of three species of the genus Nucula, were analyzed. The pairwise intra- and inter-specific distances for the CO1 sequences ranged from 0.002 to 0.017 and from 0.128 to 0.134, respectively, and no overlap was found. Phylogenetically, A. divaricata and A. mirabilis form distinct clades and cluster into a sister to all other Nucula species. The results indicated that A. di-varicata and A. mirabilis are two distinct species. The differences in the morphology and distribution between the two species were briefly discussed.

关键词： cytochrome oxidase I molecular taxonomy Bivalvia Acila distribution

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Complete mitochondrial genome of the Japanese snapping shrimp Alpheus japonicus(Crustacea:Decapoda:Caridea):Gene rearrangement and phylogeny within Caridea

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Science China(Life Sciences) 2012年第7期55卷 591-598页

作者： SHEN Xin LI Xiao sha zhongli YAN BinLun XU QiHua Jiangsu Key Laboratory of Marine Biotechnology Huaihai Institute of Technology Lianyungang 222005 China Institute of Oceanology Chinese Academy of Sciences Qingdao 266071 China shandong Peanut Research Institute Qingdao 266100 China

The complete sequence of the mitochondrial genome of the Japanese snapping shrimp Alpheus japonicus Miers （Crustacea： Decapoda： Caridea） is presented here. A comparative analysis based on the currently available mitochondrial genomic data re- vealed many previously unknown characteristics of the mitochondrial genomes of caridean shrimps. The A. japonicus mito- chondrial genome is 16487 bp long and contains the typical set of 37 metazoan genes. The gene arrangements in the mito- chondrial genomes of four previously studied carideans （Macrobrachium rosenbergii, M. nipponense, M. lanchesteri and Halocaridina rubra） were found to be identical to the pancrustacean ground pattern; thus, it was considered that gene rear- rangements probably did not occur in the suborder Caridea. In the present study, a translocation of the trnE gene involving in- version was found in Alpheus mitochondrial genomes. This phenomenon has not been reported in any other crustacean mito- chondrial genome that has been studied so far; however, the translocation of one transfer RNA gene （trnP or trnT） was report- ed in the mitochondrial genome of Exopalaemon carinicauda. When the ratios of the nonsynonymous and synonymous sub- stitutions rates （Ka/Ks） for the 13 protein coding genes from two Alpheus species （A. japonicus and A. distinguendus） and three Macrobrachium species （M. rosenbergii, M. nipponense, M. lanchesteri） were calculated, the KaIKs values for all the protein coding genes in Alpheus and Macrobrachium mitochondrial genomes were found to be less than 1 （between 0.0048 and 0.2057）, indicating that a strong purification selection had occurred. The phylogenetic tree that was constructed based on the mitochondrial protein coding genes in the genomes of nine related species indicated that Palaemonidae and Alpheidae formed a monophyly and shared a statistically significant relationship, （Palaemonidae＋Alpheidae）＋Atyidae, at the family level.

关键词： Decapoda Caridea mitochondrial genome gene order phylogeny

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