Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Complete sequences of the mitochondrial DNA of the Grateloupia filicina (Rhodophyta).

ABSTRACT: In this study, we sequenced and analyzed the complete mitogenome of Grateloupia filicina (Lamouroux) C. Agardh. The complete G. filicina mitogenome was 29,274-bp long, containing 51 genes, including 24 protein-coding genes, 1 intron, 2 rRNA genes, 24 tRNA genes, and 1 unidentified open reading frame. Twenty-one of the 24 (87.5%) protein-coding genes ended with the stop codon TAA, whereas 3 (12.5%) ended with TAG. All the protein-coding genes in G. filicina used the start codon ATG. Phylogenetic analysis revealed that G. filicina clustered with G. taiwanensis. The complete mitochondrial genome sequence provided here would be useful for understanding the evolution of Grateloupia further.

SUBMITTER: Li Y

PROVIDER: S-EPMC7800551 | biostudies-literature | 2018 Jan

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

Complete sequences of the mitochondrial DNA of the Grateloupia filicina (Rhodophyta).

Li Yue Y Meinita Maria Dyah Nur MDN Liu Tao T Chi Shan S Yin Hongxin H

Mitochondrial DNA. Part B, Resources 20180105 1

In this study, we sequenced and analyzed the complete mitogenome of Grateloupia filicina (Lamouroux) C. Agardh. The complete G. filicina mitogenome was 29,274-bp long, containing 51 genes, including 24 protein-coding genes, 1 intron, 2 rRNA genes, 24 tRNA genes, and 1 unidentified open reading frame. Twenty-one of the 24 (87.5%) protein-coding genes ended with the stop codon TAA, whereas 3 (12.5%) ended with TAG. All the protein-coding genes in G. filicina used the start cod ...[more]

PMID: 33474071

Similar Datasets

The complete plastid genome of Grateloupia filicina (Rhodophyta) and phylogenetic analysis.

Project description:In this study, we obtained the complete plastid genome of Grateloupia filicina (Lamouroux) C. Agardh using the high-throughput sequencing method. It had circular mapping organization with the length of 195,990 bp and contained 265 genes including 195 protein-coding genes, three rRNA genes, one tmRNA gene, 28 tRNA genes and 38 unidentified open reading frames (ORFs). Moreover, phylogenetic analysis revealed that G. filicina firstly clustered with Grateloupia taiwanensis. The complete plastid genome obtained in this work would be useful for further understanding the evolution of Grateloupia.

| S-EPMC7800207 | biostudies-literature

Complete sequences of the mitochondrial DNA of the wild Gracilariopsis lemaneiformis and two mutagenic cultivated breeds (Gracilariaceae, Rhodophyta).

Project description:The complete mitochondrial DNA (mtDNA) of Gracilariopsis lemaneiformis was sequenced (25883 bp) and mapped to a circular model. The A+T composition was 72.5%. Forty six genes and two potentially functional open reading frames were identified. They include 24 protein-coding genes, 2 rRNA genes, 20 tRNA genes and 2 ORFs (orf60, orf142). There is considerable sequence synteny across the five red algal mtDNAs falling into Florideophyceae including Gr. lemaneiformis in this study and previously sequenced species. A long stem-loop and a hairpin structure were identified in intergenic regions of mt genome of Gr. lemaneiformis, which are believed to be involved with transcription and replication. In addition, the mtDNAs of two mutagenic cultivated breeds ("981" and "07-2") were also sequenced. Compared with the mtDNA of wild Gr. lemaneiformis, the genome size and gene length and order of three strains were completely identical except nine base mutations including eight in the protein-coding genes and one in the tRNA gene. None of the base mutations caused frameshift or a premature stop codon in the mtDNA genes. Phylogenetic analyses based on mitochondrial protein-coding genes and rRNA genes demonstrated Gracilariopsis andersonii had closer phylogenetic relationship with its parasite Gracilariophila oryzoides than Gracilariopsis lemaneiformis which was from the same genus of Gracilariopsis.

| S-EPMC3386957 | biostudies-literature

Complete sequence of mitochondrial DNA of Gracilaria tenuistipitata (Rhodophyta).

Project description:We sequenced and analysed the complete mitogenome of Gracilaria tenuistipitata. The complete G. tenuistipitata mitogenome is 25,819 bp long, containing 50 genes, including 24 protein-coding genes, one intron, two rRNA genes, 23 tRNA genes, and one unidentified open reading frame. Twenty-three of the 24 (95.83%) protein-coding genes ended with the TAA stop codon, and one (4.17%) with TAG (rps3 gene). All protein-coding genes in G. tenuistipitata were found to contain the start codon ATG. Phylogenetic analysis revealed that G. tenuistipitata clustered with G. chilensis. The complete mitochondrial genome sequence provided here should be useful for elucidation of Gracilaria evolution.

| S-EPMC7799448 | biostudies-literature

Complete sequence of mitochondrial DNA of Gracilaria tenuistipitata var. liui (Rhodophyta).

Project description:Here, the complete Gracilaria tenuistipitata var. liui mitogenome was determined and analyzed. The complete G. tenuistipitata var. liui mitogenome length was 25,879 bp and contained 50 genes including 24 protein-coding, 2 rRNA, and 23 tRNA genes and one unidentified open reading frame (ORF). Of the 24 protein-coding genes, 23 (95.83%) terminated with the stop codon TAA, and one (4.17%) with TAG (rps3 gene). All protein-coding genes in G. tenuistipitata var. liui started with ATG codon. Mitogenome phylogenetic analysis revealed that G. tenuistipitata var. liui firstly clustered together with Gracilaria tenuistipitata. The complete mitogenome sequence would help in understanding Gracilaria evolution.

| S-EPMC7800683 | biostudies-literature

Complete mitochondrial DNA genome sequences from the first New Zealanders.

Project description:The dispersal of modern humans across the globe began ~65,000 y ago when people first left Africa and culminated with the settlement of East Polynesia, which occurred in the last 1,000 y. With the arrival of Polynesian canoes only 750 y ago, Aotearoa/New Zealand became the last major landmass to be permanently settled by humans. We present here complete mitochondrial genome sequences of the likely founding population of Aotearoa/New Zealand recovered from the archaeological site of Wairau Bar. These data represent complete mitochondrial genome sequences from ancient Polynesian voyagers and provide insights into the genetic diversity of human populations in the Pacific at the time of the settlement of East Polynesia.

| S-EPMC3494939 | biostudies-literature

The complete mitochondrial genome of Pyropia pulchra (Bangiophyceae, Rhodophyta).

Project description:Pyropia pulchra (Hollenberg) S.C. Lindstrom & Hughey is a foliose seaweed in Bangiales order distributed in North America. We assembled the complete mitochondrial genome sequence of Pyropia pulchra (33,190 bp), and annotated 26 protein-coding genes, 24 transfer RNAs, and 2 ribosomal RNAs. We analyzed a maximum likelihood tree using conserved 23 mitochondrial genes from Bangiales species. The mitochondrial phylogeny of Bangiales species shows a strong monophyletic relationship of genus Pyropia, and the taxonomic position of P. pulchra within the genus.

| S-EPMC7782328 | biostudies-literature

The complete mitochondrial genome of Neoporphyra dentata (Bangiales, Rhodophyta).

Project description:Neoporphyra dentata (Kjellman) L.-E. Yang & J. Brodie, 2020 is an economically valuable species in seaweed aquaculture in the southwest coastal regions of Korea. Here, we report the complete mitogenome information of N. dentata using Illumina Miseq platform permitted assembly of a circular mitochondrial genome of 26,807 bp from N. dentata consisting of 29.9% GC contents, 9 protein coding genes (PCGs), 2 ribosomal RNA genes (12S rRNA and 16S rRNA), 23 transfer RNA (tRNA) genes, and a non-coding region. The overall nucleotide composition was A: 38%, T: 32%, C: 14.7%, and G: 15.2%. The mitochondrial genome of N. dentata contributes to revealing the phylogenetic relationships among species of the Bangiaceae family.

| S-EPMC9347460 | biostudies-literature

Grateloupia tenuis Wang et Luan sp. nov. (Halymeniaceae, Rhodophyta): a new species from South China Sea based on morphological observation and rbcL gene sequences analysis.

Project description:Grateloupia tenuis Wang et Luan sp. nov. is a new species described from Lingshui, Hainan Province, South China Sea. Based on the external form and internal structure, combined with rbcL gene sequence analysis, Grateloupia tenuis is distinct from other Grateloupia species as follows: (1) thalli is slippery and cartilaginous in texture; possess fewer branches, relatively slight main axes, and two or three dichotomous branches; (2) cortex is 5-6 layers; medulla is solid when young, but hollow in old branches; reproductive structures are dispersed in main axes of thalli and lower portions of branchlets; exhibits Grateloupia-type auxiliary cell ampullae; (3) the four studied G. tenuis sequences were positioned in a large Grateloupia clade of Halymeniaceae, which included sister group generitype G. filicina with 68 bp differences; G. tenuis was determined to be a sister taxon to the G. catenata, G. ramosissima, G. orientalis, and G. filiformis subclade. The pairwise distances between G. tenuis and these species were 39 to 50 bp. The sequences of G. tenuis differed by 81-108 bp from the sequences of other samples in Grateloupia; there are 114-133 bp changes between G. tenuis and other genera of Halymeniaceae. In final analysis, we considered Grateloupia tenuis Wang et Luan sp. nov. to be a new species of genus Grateloupia.

| S-EPMC3885149 | biostudies-literature

Phylogeny of east Asian mitochondrial DNA lineages inferred from complete sequences.

Project description:The now-emerging mitochondrial DNA (mtDNA) population genomics provides information for reconstructing a well-resolved mtDNA phylogeny and for discerning the phylogenetic status of the subcontinentally specific haplogroups. Although several major East Asian mtDNA haplogroups have been identified in studies elsewhere, some of the most basal haplogroups, as well as numerous minor subhaplogroups, were not yet determined or fully characterized. To fill the lacunae, we selected 48 mtDNAs from >2,000 samples across China for complete sequencing that cover virtually all (sub)haplogroups discernible to date in East Asia. This East Asian mtDNA phylogeny can henceforth serve as a solid basis for phylogeographic analyses of mtDNAs, as well as for studies of mitochondrial diseases in East and Southeast Asia.

| S-EPMC1180693 | biostudies-literature

Phylogenetic studies of Hylopetes alboniger based on complete mitochondrial DNA sequences.

Project description:The complete mitochondrial genome sequence of the Hylopetes alboniger was sequenced and reported for the first time using muscle tissue. The mitochondrial genome is 16,584?bp in size, including 22 tRNA genes, 13 protein-coding genes, 12S rRNA, 16S rRNA, and one control region. Phylogenetic analysis was performed using whole mitogenome sequences with other 15 closely related taxa to assess their phylogenetic relationship. This mitochondrial genome sequence will provide a better understanding for H. alboniger evolution in the future.

| S-EPMC7800767 | biostudies-literature