The complete mitochondrial genome sequence of Ptyas mucosus.
ABSTRACT: The complete mitochondrial genome sequence of the Ptyas mucosus was sequenced and reported for the first time using muscle tissue. The total length is 17?151?bp and sequence analysis showed its structure is in accordance with other snakes. The complete mitochondrial genome contains 2 rRNA genes, 21 tRNA genes, 13 protein-coding genes (PCGs), 2 control regions and 1 putative origin of L-strand replication. The gene order and nucleotide composition of P. mucosus are very similar with E. bimaculata, E. anomala and E. schrenckii. A phylogenetic tree of mitochondrial genomes indicated P. mucosus had the most closely relationship with E. bimaculata, and formed a monophyletic group with E. bimaculata, E. anomala and E. schrenckii.
Project description:The complete mitochondrial genome sequence of the hybrid of <i>Huso dauricus</i> (?) × <i>Acipenser schrenckii</i> (?) is described in this study. The 16,693bp long circular molecule consisted of 13 protein-coding genes, 2 rRNA genes, 22 tRNA genes, and a control region, showed a typical vertebrate pattern. All genes were encoded on the heavy strain except for ND6 and eight tRNA genes. Base composition of the heavy strain was A(30.40%), T(24.19%), C(29.26%), G(16.16%), and with A?+?T bias of 54.59%. Comparing with the complete mitochondrial genome of its parents, the hybrid sturgeon of <i>Huso dauricus</i> (?) × <i>Acipenser schrenckii</i> (?) was consistent with a maternal inheritance. The complete mitogenome of the hybrid sturgeon of <i>Huso dauricus</i> (?) × <i>Acipenser schrenckii</i> (?) provides an important dataset for the exploration of mitochondrial inheritance mechanism.
Project description:The two-spot swimming crab <i>Charybdis bimaculata</i> (Miers, 1886) is an important decapod species in the benthic ecosystem of Korean waters. In this study, we determined its complete mitochondrial genome by the combination of NGS analysis using MiSeq platform and PCR-based cloning method. The circular mitochondrial genome of <i>C. bimaculata</i> was 15,714?bp in length in which the standard set of 13 protein-coding genes, 22 tRNA genes, and 2 rRNA genes were encoded. Phylogenic analysis showed that <i>C.bimaculata</i> is most closely related to <i>Charybdis feriata</i>. The complete mitogenome sequence information of <i>C. bimaculata</i> would provide useful data for the conservation of their population in the Pacific ocean.
Project description:Salipiger mucosus Martínez-Cànovas et al. 2004 is the type species of the genus Salipiger, a moderately halophilic and exopolysaccharide-producing representative of the Roseobacter lineage within the alphaproteobacterial family Rhodobacteraceae. Members of this family were shown to be the most abundant bacteria especially in coastal and polar waters, but were also found in microbial mats and sediments. Here we describe the features of the S. mucosus strain DSM 16094(T) together with its genome sequence and annotation. The 5,689,389-bp genome sequence consists of one chromosome and several extrachromosomal elements. It contains 5,650 protein-coding genes and 95 RNA genes. The genome of S. mucosus DSM 16094(T) was sequenced as part of the activities of the Transregional Collaborative Research Center 51 (TRR51) funded by the German Research Foundation (DFG).
Project description:Roseovarius mucosus Biebl et al. 2005 is a bacteriochlorophyll a-producing representative of the marine Roseobacter group within the alphaproteobacterial family Rhodobacteraceae, which was isolated from the dinoflagellate Alexandrium ostenfeldii. The marine Roseobacter group was found to be abundant in the ocean and plays an important role for global and biogeochemical processes. Here we describe the features of the R. mucosus strain DFL-24(T) together with its genome sequence and annotation generated from a culture of DSM 17069(T). The 4,247,724 bp containing genome sequence encodes 4,194 protein-coding genes and 57 RNA genes. In addition to the presence of four plasmids, genome analysis revealed the presence of genes associated with host colonization, DMSP utilization, cytotoxins, and quorum sensing that could play a role in the interrelationship of R. mucosus with the dinoflagellate A. ostenfeldii and other marine organisms. Furthermore, the genome encodes genes associated with mixotrophic growth, where both reduced inorganic compounds for lithotrophic growth and a photoheterotrophic lifestyle using light as additional energy source could be used.
Project description:Desulfurococcus mucosus Zillig and Stetter 1983 is the type species of the genus Desulfurococcus, which belongs to the crenarchaeal family Desulfurococcaceae. The species is of interest because of its position in the tree of life, its ability for sulfur respiration, and several biotechnologically relevant thermostable and thermoactive extracellular enzymes. This is the third completed genome sequence of a member of the genus Desulfurococcus and already the 8(th) sequence from a member the family Desulfurococcaceae. The 1,314,639 bp long genome with its 1,371 protein-coding and 50 RNA genes is a part of the Genomic Encyclopedia of Bacteria and Archaea project.
Project description:We present the genome of Roseovarius mucosus strain SMR3, a marine bacterium isolated from the diatom Skeletonema marinoi strain RO5AC sampled from top layer sediments at 14 m depth. Its 4,381,426 bp genome consists of a circular chromosome and two circular plasmids and contains 4,178 coding sequences (CDSs).
Project description:Panulirus argus is a keystone species and target of the most lucrative fishery in the Caribbean region. This study reports, for the first time, the complete mitochondrial genome of Panulirus argus (average coverage depth nucleotide-1?=?70×) assembled from short Illumina 150?bp PE reads. The AT-rich mitochondrial genome of Panulirus argus was 15 739?bp in length and comprised 13 protein-coding genes (PCGs), 2 ribosomal RNA genes, and 22 transfer RNA genes. A single 801?bp long intergenic space was assumed to be the D-loop. Most of the PCGs were encoded on the H-strand. The gene order observed in the mitochondrial genome of Panulirus argus corresponds to the presumed Pancrustacean ground pattern. KA/KS ratios calculated for all mitochondrial PCGs showed values?<?1, indicating that all these PCGs are evolving under purifying selection. A maximum likelihood phylogenetic analysis (concatenated PCGs [n?=?13], 154 arthropods) supported the monophyly of the Achelata and other infraorders within the Decapoda. Mitochondrial PCGs have enough phylogenetic informativeness to explore high-level genealogical relationships in the Pancrustacea. The complete mitochondrial genome of the Caribbean spiny lobster Panulirus argus will contribute to the better understanding of meta-population connectivity in this keystone overexploited species.
Project description:The complete mitochondrial genome was sequenced from the marine mysid <i>Neomysis awatschensis</i>. The sequenced total genome size was 19,135?bp. The mitochondrial genome of <i>N. awatschensis</i> contained 13 protein-coding genes (PCGs), two rRNAs, and 22 tRNAs. Of 13 PCGs, all the genes had complete stop codons TAA and TAG, respectively, while the start codon of 13 PCGs was ATG (<i>CO1, Cytb</i>, <i>ND4L, ATP8</i>, <i>ATP6</i>, and <i>ND4</i> genes), ATT (<i>CO3</i>, <i>ND2</i>, and <i>ND5</i> genes), and ATA (<i>CO2, ND3, ND6,</i> and <i>ND1</i> genes), respectively. The ratio of A?+?T and G?+?C nucleotides of 13 PCGs of <i>N. awatschensis</i> mitogenome showed 68.8% and 31.2%, respectively, while those ratio of all the sequences were 70.8% and 29.2%, respectively.
Project description:The gene encoding a thermoactive pullulanase from the hyperthermophilic anaerobic archaeon Desulfurococcus mucosus (apuA) was cloned in Escherichia coli and sequenced. apuA from D. mucosus showed 45.4% pairwise amino acid identity with the pullulanase from Thermococcus aggregans and contained the four regions conserved among all amylolytic enzymes. apuA encodes a protein of 686 amino acids with a 28-residue signal peptide and has a predicted mass of 74 kDa after signal cleavage. The apuA gene was then expressed in Bacillus subtilis and secreted into the culture fluid. This is one of the first reports on the successful expression and purification of an archaeal amylopullulanase in a Bacillus strain. The purified recombinant enzyme (rapuDm) is composed of two subunits, each having an estimated molecular mass of 66 kDa. Optimal activity was measured at 85 degrees C within a broad pH range from 3.5 to 8.5, with an optimum at pH 5.0. Divalent cations have no influence on the stability or activity of the enzyme. RapuDm was stable at 80 degrees C for 4 h and exhibited a half-life of 50 min at 85 degrees C. By high-pressure liquid chromatography analysis it was observed that rapuDm hydrolyzed alpha-1,6 glycosidic linkages of pullulan, producing maltotriose, and also alpha-1,4 glycosidic linkages in starch, amylose, amylopectin, and cyclodextrins, with maltotriose and maltose as the main products. Since the thermoactive pullulanases known so far from Archaea are not active on cyclodextrins and are in fact inhibited by these cyclic oligosaccharides, the enzyme from D. mucosus should be considered an archaeal pullulanase type II with a wider substrate specificity.
Project description:In this study, we cloned and sequenced the complete mitochondrial genome of <i>Barbatula nuda</i> and <i>Barbatula toni</i> with 16,620 and 16,619 nucleotides, respectively. The complete mitogenomes of the two species both include 13 protein-coding genes (PCGs), 2 ribosomal RNA genes, 22 transfer RNA genes, and a non-coding control region. All PCGs of the two species are initiated with ATG or GTG (only for <i>COI</i>) and ended with complete (TAA and TAG) or incomplete (TA and T) stop codons. The complete mitochondrial genomes would provide important molecular data for further phylogenetic analyses.