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The complete mitochondrial genome of Boccardiella hamata (Annelida: Polychaeta: Spionida).

ABSTRACT: In this study, the complete mitogenome sequence of Korean Boccardiella hamata was determined. This is the first complete mitogenome in the order Spionida. The complete mitogenome of B. hamata is 17,561 bp in length with 12 protein-coding genes (atp8 gene absent), 23 transfer RNAs, 2 ribosomal RNAs, and 1 control region. Interestingly, the gene arrangement of the 12 PCGs of B. hamata is unique, which is very different from that of the other polychaetes currently known. The phylogenetic tree supported the traditional taxonomic position of Spionidae within subclass Sedentaria.

SUBMITTER: Lee GH

PROVIDER: S-EPMC8366634 | biostudies-literature |

REPOSITORIES: biostudies-literature

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The complete mitochondrial genome of Glycera chirori Izuka (Annelida: Polychaeta): an evidence of conservativeness between gene arrangement and phylogenesis in Glycera.

Project description:The complete mitochondrial genome of Glycera chirori Izuka (Annelida: Polychaeta) was presented, which is a circular molecule of 15,930 bp nucleotides. It encodes 37 genes, including 13 PCGs, 22 tRNAs, and two rRNAs. The length of non-coding regions is 1428 bp, and the longest one (1346 bp) is speculated as the control region, which is located between trnA and trnL2 and is longer than most species in Glycera. The complete mitogenome of G. chirori Izuka consists of 31.2% A, 23.6% C, 12.9% G, and 32.2% T, which has T vs. A skew (-0.02) and C vs. G skew (-0.29), respectively. Phylogenetic analysis indicates the classification status of G. chirori Izuka and the relationship with other species in Glycera, which is closer with Glycera unicornis and Glycera fallax (bootstrap = 100). By comparisons, the gene arrangement of G. chirori Izuka and other seven species in Glycera are identical and they also cluster together in phylogenetic tree with higher support rate, which indicates the conservativeness between gene arrangement and phylogenetic analysis in Glycera. In conclusion, the complete mitochondrial genome of G. chirori Izuka can provide supportive data for further molecular and evolutionary analysis of Glycera.

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The complete mitochondrial genome of the terebellid polychaete Neoamphitrite affinis (Polychaeta; Terebellidae).

Project description:Here, we sequenced and annotated the complete mitochondrial genome for the terebellid polychaete, Neoamphitrite affinis (Malmgren 1866). The complete mitogenome of N. affinis is 15,823 bp, with 33.4% A, 18.2% C, 11.5% G, and 37.0% T. The circular N. affinis mitochondrial genome comprises 13 protein-coding genes (PCGs), 23 transfer RNA (tRNA) genes including 2 methionine tRNA genes, 2 ribosomal RNA (rRNA) genes, and a non-coding region. Phylogenomic analysis based on 26 in-group taxa belonging to the two main clades, Sedentaria and Errantia, is congruent with published phylogenetic relationship for annelids, which N. affinis was grouped with Pista cristata (Terebellida; Terebellidae). This mitogenome resource will be useful for future phylogenetic studies of families belonging to Sedentaria.

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Complete mitochondrial genome of the abalone shell-boring Polydora hoplura (Polychaeta, Spionidae).

Project description:Polydora hoplura Claparede 1868 (Polychaeta, Spionidae) is a mollusk shell-boring species which has been reported as a harmful species. In the present study, we sequenced and reported the mitochondrial genome (mitogenome) of P. hoplura from Korea. Its mitogenome was determined by long range PCR and primer walking. The mitogenome was found to be 17,707 bp in length and contained two ribosomal RNAs (rRNAs), 23 transfer RNAs (tRNAs), and 12 protein-coding genes which showed different gene arrangement with that in related mitogenomes of species of Sedentaria (Annelida). Interestingly, the atp8 gene was not found in the mitogenome of P. hoplura, whereas it is present in the mitogenomes of related species P. brevipalpa and P. websteri. Moreover, nad2 (3' end) and cox1 (5' end) genes overlapped in 23 bases. The mitogenome structure and gene contents of P. hoplura provide useful information on the evolution and phylogenetic relationship among polychaete species.

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Syllidae (Annelida, Polychaeta) from the Caribbean coast of Venezuela.

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The complete mitochondrial genome of Cirriformia cf. tentaculata (Polychaeta, Cirratulidae) from Dok-Do, Korea.

Project description:Mitogenome sequence of Cirriformia cf. tentaculata (Terebellida, Cirratulidae), a species of marine polychaete worm, was determined in this study. This is the first mitogenome reported for genus Cirriformia and family Cirratulidae. This complete mitogenome is 15,495?bp in length, containing 13 protein coding genes (PCGs), two ribosomal RNAs (rRNAs), and 23 transfer RNAs (tRNAs). The mitogenome of Cirriformia cf. tentaculata has high A?+?T content of 59.5% (A, 29.5%; C, 26.9%; G, 13.6%; T, 30.0%). In neighbour-joining (NJ) analysis, Cirriformia cf. tentaculata is clustered with the components of order Terebellida.

| S-EPMC7800629 | biostudies-literature

Complete mitochondrial genome sequence of the giant mud worm Paraleonnates uschakovi Khlebovich & Wu, 1962 (Polychaeta: Nereididae).

Project description:Complete mitochondrial genome sequence of the giant mud worm Paraleonnates uschakovi (Polychaeta: Nereididae) was determined in this study for the first time. The mitogenome of P. uschakovi is 15,540 bp in length. It has 13 protein-coding genes, two rRNA genes, 22 tRNA genes and a non-coding region. Mitogenome analysis of P. uschakovi showed inversion in the positions of three tRNAs compared to the mitogenome sequences of Perinereis aibuhitensis, P. nuntia and Platynereis dumerilii. The phylogenetic position of P. uschakovi compared to 15 selected polychaetes was investigated. P. uschakovi was grouped into the family of Nereididae. It is closely related to the clade containing Tylorrhynchus heterochaetus and Namalycastis abiuma.

| S-EPMC7800312 | biostudies-literature

A new species of Leodice from Korean waters (Annelida, Polychaeta, Eunicidae).

Project description:A new eunicid species, Leodice duplexasp. n., from intertidal and subtidal habitats in the eastern coast of South Korea is described. The new species is assigned to the C-2 group, and is similar to Leodice antennata, the type species of the genus, in having the following combination of characteristics: moniliform antennae and palps, bidentate compound falcigers, articulated peristomial and notopodial cirri, pectinate branchiae showing bimodal distribution of branchial filaments, and yellow aciculae. However, L. duplexasp. n. is readily distinguished from L. antennata by the following features: the aciculae are 2-4 in number, with blunt or pointed tips and hammer-headed or bifid tips, and the subacicular hooks are paired in some chaetigers. A detailed description and illustrations are provided for the new species. The validity of the new species is also supported by a genetic comparison using sequences of the mitochondrial cytochrome c oxidase subunit I (COI). A revised key to known Leodice species is provided with a comparison of their morphological characteristics.

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Timareteposteria, a new cirratulid species from Korea (Annelida, Polychaeta, Cirratulidae).

Project description:A new cirratulid species, Timareteposteria sp. n., is described from the intertidal habitats of the eastern coast of South Korea. The new species is closely related to Timareteluxuriosa (Moore, 1904) from southern California based on morphological similarity of the branchial and tentacular finalents and the noto- and neuropodial spines. However, T.posteria sp. n. differs from the latter based on the following characteristics: 1) evenly divided peristomium into three annulations; 2) 2-4 neuropodial spines originating in the posterior chaetigers alternated by a few capillaries; and 3) complete shift in branchial finalents located about one-third between the notopodium and the dorsal midline. The new species has a methyl green staining pattern (MGSP) distinct from other Timarete species. Detailed description and illustrations of the new species are provided with molecular information based on the partial sequences of the mitochondrial cytochrome c oxidase subunit I (COI) and 16S ribosomal RNA (16S). This study also includes a key and discussion of known Timarete species from East Asia.

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First report of the complete mitochondrial genome and phylogenetic analysis of Aphrodita australis (Aphroditidae, Annelida).

Project description:In this study, the complete mitochondrial genome of the Aphrodita australis was sequenced. The complete mitochondrial genome was circular and 15,288?bp in length, consisted of a typical set of 13 protein-coding genes (PCGs), 2 ribosomal RNA (rRNA) genes, 22 transfer RNA (tRNA) genes, and 1 non-coding control region. All these genes are in the heavy strand. The non-coding control region is 672?bp in length, and located between tRNA-Ser and tRNA-Leu. The overall nucleotides base composition of the heavy strand is 31.02% for A, 22.76% for C, 12.49% for G, and 33.73% for T, with a slight A?+?T-rich feature (64.75%). All of the PCGs begin with ATG as their start codon and the cox 3, cytb and nad 3 are terminated with TAA, atp8, nad4, nad 4l, and nad 6 are terminated with TAG, while others are terminated by incomplete codon T. Seen from the phylogenetic tree, A. australis has a more close relationship with Goniada japonica than other species.

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