Browse
Submit Data
Databases
API
Help

Dataset Information

20 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The complete mitogenome of 'Fujian': an important Saccharina japonica cultivar of South China.

ABSTRACT: In this work, complete mitogenome of Saccharina japonica cultivar 'Fujian' was reported. It had circular mapping organization with the length of 37,638?bp and encoded 66 genes including three rRNAs, 25 tRNAs, 35 known proteins, and three ORFs. Gene arrangement and component were conserved in those reported Saccharina species and cultivars. Only 33 nucleotide substitutions were found according to the total alignment of S. japonica and 'Fujian'. The intergenic region of 19 nucleotides which is located between rps3 and rps9 in S. japonica mitogenome was not detected in 'Fujian'. Phylogenetic analysis showed that 'Fujian' had a closer relationship with S. japonica and cultivar 'Rongfu' which strongly supported its genetic origin and phylogenetic relationship of Chinese Saccharina cultivars.

SUBMITTER: Zhang J

PROVIDER: S-EPMC7800045 | biostudies-literature | 2018 May

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

The complete mitogenome of 'Fujian': an important Saccharina japonica cultivar of South China.

Zhang Jing J Liu Na N Liu Tao T

Mitochondrial DNA. Part B, Resources 20180515 2

In this work, complete mitogenome of Saccharina japonica cultivar 'Fujian' was reported. It had circular mapping organization with the length of 37,638 bp and encoded 66 genes including three rRNAs, 25 tRNAs, 35 known proteins, and three ORFs. Gene arrangement and component were conserved in those reported Saccharina species and cultivars. Only 33 nucleotide substitutions were found according to the total alignment of S. japonica and 'Fujian'. The intergenic region of 19 nuc ...[more]

PMID: 33474253

Similar Datasets

The complete mitogenome of 'Zaohoucheng', an important Saccharina japonica cultivar in China.

Project description:Saccharina japonica is one of the most important economic seaweeds. Here, complete mitogenome of S. japonica cultivar 'Zaohoucheng' were reported. Its circular mapping organization with the length of 37,657?bp had an overall A?+?T content of 64.70% and encoded three rRNAs, 25 tRNAs, 35 known mitochondrial proteins and three ORFs. From the total alignment of S. japonica and its cultivar 'Zaohoucheng', only 12 nucleotide substitutions were detected. Gene arrangement and component of 'Zaohoucheng' mitogenome were identical to those of reported Saccharina species, indicating highly conservative evolution. The phylogenetic analysis showed that 'Zaohoucheng' had a closer relationship with S. japonica which strongly supported the parental origin of 'Zaohoucheng'.

| S-EPMC7800536 | biostudies-literature

The complete mitogenome of 'Dongfang No.3', an important Saccharina cultivar in China.

Project description:In this work, the complete mitogenome of Saccharina cultivar 'Dongfang No.3' is reported. This mitogenome has a circular mapping organization with the length of 37,657 bp and contains 66 genes, including 35 protein-coding genes, three rRNAs, 25 tRNAs, and three open reading frames (orfs). The overall AT content is 64.73%, showing a higher AT content. The gene content and gene sequence are consistent with those reported varieties and cultivars of Saccharina. Chinese main Saccharina cultivars are analyzed by phylogenetic analysis. It indicates that 'Dongfang No.3' has a close relationship with Saccharina japonica, which strongly supports its genetic origin. The complete mitogenome analysis in this work would help in understanding the genetic background of Chinese Saccharina cultivars.

| S-EPMC7995842 | biostudies-literature

The complete mitogenome of Saccharina cultivar 'Haiyi No.1' (Saccharina japonica × latissima) and the phylogenetic analysis.

Project description:Here, we reported the complete mitogenome of Saccharina cultivar 'Haiyi No.1' (Saccharina japonica × latissima). This mitogenome had a circular mapping organization with the length of 37,657 bp and contained 66 genes including 35 protein-encoding genes, 3 rRNAs, 25 tRNAs, and 3 open reading frames (ORFs). The AT content accounted for 64.7% of the entire mitogenome. The gene content and gene order were consistent with those reported Saccharina species and cultivars. Phylogenetic analysis showed the phylogenetic relationship among Chinese Saccharina cultivars and demonstrated that 'Haiyi No.1' had a closer relationship with Pingbancai which strongly supported its genetic source.

| S-EPMC7748701 | biostudies-literature

Complete mitogenome of Saccharina cultivation variety 'Ailunwan'(Saccharina japonica × latissima).

Project description:Complete mitogenome of Saccharina variety 'Ailunwan' (Saccharina japonica?×?latissima) was obtained in this work. Circular-mapping mitogenome was 37,657?bp with overall A?+?T content of 64.71%, encoding 3 rRNAs (23S, 16S and 5S), 25 tRNAs, 35 protein-coding genes and 3 open reading frames (ORFs). Gene content and genome organization of 'Ailunwan' mitogenome were identical to those Saccharina species. From the total alignment of 'Ailunwan' and another reported variety 'Rongfu' (S. japonica?×?latissima), 33 nucleotide substitutions were detected, and one intergenic region of 19 nucleotides insertion/deletion was found which located between rps3 and rps9. The phylogenetic analysis based on mitogenomes showed that 'Ailunwan' had a closer evolutionary relationship with Saccharina than Laminaria and validated the genus Saccharina and Laminaria were polyphyletic.

| S-EPMC7800419 | biostudies-literature

Complete mitochondrial genome of Saccharina cultivar 'Hainong No.1' (Saccharina japonica?×?latissima).

Project description:Here, we sequenced the complete mitogenome of 'Hainong No.1', a hybrid Saccharina cultivar produced by crossing the cultivars 'Zaohoucheng' (?) and 'Pingbancai' (?). Circular mapping revealed that the mitogenome was 37,657?bp in length and had an overall AT content of 64.66%, including 35 protein-encoding genes, three ribosomal RNA genes (rRNA), 25 transfer RNA genes (tRNA) and three open reading frames (ORF). A phylogenetic tree constructed from the amino acids separated the six cultivars into two groups; 'Hainong No.1' had a closer evolutionary relationship with the cultivars 'Zaohoucheng', 'Pingbancai' and 'Ailunwan', whereas 'Rongfu' and 'Fujian' formed a distinct cluster. Further comparison between the 'Hainong No.1' and the parental mitogenomes displayed that 'Pingbancai' and 'Zaohoucheng' were the female and male parents, respectively.

| S-EPMC7800615 | biostudies-literature

The complete mitogenome of 'Pingbancai', an important economic Saccharina cultivation variety.

Project description:Saccharina is one of the most important economic seaweed. We presented the complete mitogenome of Saccharina variety 'Pingbancai' (Saccharina japonica?×?latissima) in this work. Circular-mapping mitogenome was 37,658?bp in length with overall A?+?T content of 64.70%, encoding 3 rRNAs (23S, 16S and 5S), 25 tRNAs, 38 genes (including 3 open reading frames, ORFs). Gene arrangement and component of 'Pingbancai' mitogenome were identical to those Saccharina species and cultivation varieties, which show highly conservative evolution in mitochondrial genomes within Saccharina. The phylogenetic analysis based on mitogenomes showed that 'Pingbancai' had a closer evolutionary relationship with Saccharina japonica than Saccharina latissima and the supported mitogenome was maternally inherited.

| S-EPMC7800942 | biostudies-literature

The complete mitogenome of one commercial Saccharina cultivar in Chinese market and its evaluation of genetic relationship.

Project description:Here, the complete mitogenome of one commercial Saccharina cultivar in Chinese market which marked 'Shichang' was reported. Circular-mapping mitogenome with an overall A?+?T content of 64.70% was 37,657?bp in size. It encoded three rRNAs (23s, 16s, and 5s), 25 tRNAs, 38 proteins (including three open reading frames, ORFs). Gene component and arrangement of 'Shichang' mitogenome were identical to those reported Saccharina cultivars. Further phylogenetic analysis of mitogenomes confirmed that 'Shichang' had closer relationship with cultivar 'Pingbancai', which suggested its parental origin and genetic relationship.

| S-EPMC7800705 | biostudies-literature

Effect of domestication on the genetic diversity and structure of Saccharina japonica populations in China.

Project description:Saccharina japonica is a commercially and ecologically important seaweed and is an excellent system for understanding the effects of domestication on marine crops. In this study, we used 19 selected simple sequence repeat (SSR) markers to investigate the influence of domestication on the genetic diversity and structure of S. japonica populations. Wild kelp populations exhibited higher genetic diversity than cultivated populations based on total NA, HE, HO, NP and AR. Discriminant analysis of principal components (DAPC), a neighbour-joining (NJ) tree and STRUCTURE analyses indicated that S. japonica populations could be divided into two groups (a cultivated/introduced group and a wild indigenous group) with significant genetic differentiation (P?<?0.0001). Divergent selection, continuous inbreeding and inter-specific hybridization have caused the divergence of these two genetically separate gene pools. The significant genetic differentiation between northern and southern cultivated populations appears to be due to inter-specific hybridization and wild germplasm introduction during the domestication process. In addition, the cultivation of S. japonica has not resulted in any serious genetic disturbance of wild introduced S. japonica populations. An understanding of the genetic diversity and genetic structure of domesticated S. japonica will be necessary for further genetic improvement and effective use of germplasm.

| S-EPMC5296902 | biostudies-other

Saccharina japonica cultivar:Saccharina japonica

Project description:Saccharina japonica cultivar:Saccharina japonica Raw sequence reads

| PRJNA414034 | ENA

Complete mitogenome of two dolphinfishes (Coryphaena hippurus and Coryphaena equiselis) from South China sea.

Project description:The Coryphaenidae family comprises of single genus, Coryphaena, which includes two species: Coryphaena hippurus and Coryphaena equiselis. In this study, we described the complete mitochondrial genome of the two species in Coryphaena. The assembled mitogenome of C. hippurus and C. equiselis consists of 16731?bp and 16690?bp, respectively. Two mitogenomes contain the typical gene complement including 13 protein-coding genes, 22 transfer RNAs, 2 ribosomal RNA genes and a non-coding D-loop. The longest protein-coding genes of these species was ND5, whereas the shortest ATP8. The length of D-loop is 1168?bp (C. hippurus) and 1206?bp (C. equiselis).

| S-EPMC7799921 | biostudies-literature