scholarly journals Accelerated molecular breeding of novel cytoplasmic male sterility lines in rice using orfH79 or orf290 haplotypes

2020 ◽  
Author(s):  
Yanping Tan ◽  
Tong Chen ◽  
Ze Tian ◽  
Jiayang Li ◽  
Xuequn Liu ◽  
...  
Keyword(s):  
Cytoplasmic Male Sterility ◽  
Male Sterility ◽  
Higher Plants ◽  
Amino Acid Sequences ◽  
Cultivated Rice ◽  
Maintainer Line ◽  
Breeding Programs ◽  
Aa Genome ◽  
Allele Variation ◽  
Grain Security

Abstract The identification and development of new cytoplasmic male sterility (CMS) lines in higher plants is important for the preservation of grain security and the prevention of homogenization of hybrid rice. Molecular markers assisted selection (MAS) based on CMS-associated genes or mitochondrial-specific chimeric sequences are important for rapid and effective breeding of new CMS lines and hybrids. In our study, the distribution and allele variation of orfH79 and orf290 genes were characterized from 273 wild and cultivated rice in the AA genome species. Based on the alignment of nucleotide and amino acid sequences, four accessions with orfH79 and three accessions with orf290 were screened. Four novel CMS lines carrying orfH79 haplotypes and three novel CMS lines carrying orf290 haplotypes were then developed using multiple backcross generations with a maintainer line under MAS. The breeding process used in our study provides an efficient and feasible approach for selecting new CMS lines. CMS lines selected in our study are important for enriching rice germplasm resources and guaranteeing rice breeding programs.

scholarly journals Organelle genome composition and candidate gene identification for Nsa cytoplasmic male sterility in Brassica napus

BMC Genomics ◽  
2019 ◽  
Vol 20 (1) ◽  
Author(s):  
Shi-Fei Sang ◽  
De-Sheng Mei ◽  
Jia Liu ◽  
Qamar U. Zaman ◽  
Hai-Yan Zhang ◽  
...  
Keyword(s):  
Brassica Napus ◽  
Mitochondrial Genome ◽  
Cytoplasmic Male Sterility ◽  
Male Sterility ◽  
Parental Species ◽  
Sequencing Technology ◽  
Genome Composition ◽  
Maintainer Line ◽  
Organelle Genomes ◽  
Cms Line

Abstract Background Nsa cytoplasmic male sterility (CMS) is a novel alloplasmic male sterility system derived from somatic hybridization between Brassica napus and Sinapis arvensis. Identification of the CMS-associated gene is a prerequisite for a better understanding of the origin and molecular mechanism of this CMS. With the development of genome sequencing technology, organelle genomes of Nsa CMS line and its maintainer line were sequenced by pyro-sequencing technology, and comparative analysis of the organelle genomes was carried out to characterize the organelle genome composition of Nsa CMS as well as to identify the candidate Nsa CMS-associated genes. Results Nsa CMS mitochondrial genome showed a higher collinearity with that of S. arvensis than B. napus, indicating that Nsa CMS mitochondrial genome was mainly derived from S. arvensis. However, mitochondrial genome recombination of parental lines was clearly detected. In contrast, the chloroplast genome of Nsa CMS was highly collinear with its B. napus parent, without any evidence of recombination of the two parental chloroplast genomes or integration from S. arvensis. There were 16 open reading frames (ORFs) specifically existed in Nsa CMS mitochondrial genome, which could not be identified in the maintainer line. Among them, three ORFs (orf224, orf309, orf346) possessing chimeric and transmembrane structure are most likely to be the candidate CMS genes. Sequences of all three candidate CMS genes in Nsa CMS line were found to be 100% identical with those from S. arvensis mitochondrial genome. Phylogenetic and homologous analysis showed that all the mitochondrial genes were highly conserved during evolution. Conclusions Nsa CMS contains a recombined mitochondrial genome of its two parental species with the majority form S. arvensis. Three candidate Nsa CMS genes were identified and proven to be derived from S. arvensis other than recombination of its two parental species. Further functional study of the candidate genes will help to identify the gene responsible for the CMS and the underlying molecular mechanism.

scholarly journals Mitochondrial genomes organization in alloplasmic lines of sunflower (Helianthus annuus) with various types of cytoplasmic male sterility

2018 ◽  
Author(s):  
Maksim Makarenko ◽  
Igor Kornienko ◽  
Kirill Azarin ◽  
Alexander Usatov ◽  
Maria Logacheva ◽  
...  
Keyword(s):  
Comparative Analysis ◽  
Cytoplasmic Male Sterility ◽  
Male Sterility ◽  
Helianthus Annuus ◽  
De Novo ◽  
Higher Plants ◽  
Mitochondrial Genomes ◽  
Alloplasmic Lines ◽  
Cms Line ◽  
Fertile Line

Background. Cytoplasmic male sterility (CMS) is a common phenotype in higher plants, which often is associated with rearrangements in mitochondrial DNA (mtDNA), and is widely used to produce hybrid seeds in a variety of valuable crop species. The CMS phenomenon investigations are also promote understanding of a fundamental issue of nuclear-cytoplasmic interactions in the ontogeny of higher plants. In the present study, we analyzed the structural changes in mitochondrial genomes of three alloplasmic lines of sunflower (Helianthus annuus). The investigation was focused on CMS line PET2, as there are very few reports about its mtDNA organization. Methods. The NGS sequencing, de novo assembly, and annotation of sunflower mitochondrial genomes were performed. The comparative analysis of mtDNA of HA89 fertile line and two HA89 CMS lines (PET1, PET2) occurred. Results. The mtDNA of the HA89 fertile line was almost identical to the HA412 line (NC_023337). The comparative analysis of HA89 fertile and CMS (PET1) analog mitochondrial genomes revealed 11852 bp inversion, 4732 bp insertion, 451 bp deletion and 18 variant sites. In mtDNA of HA89 (PET2) CMS line 77 kb translocation, 711 bp and 3780 bp deletions, as well as 1558 bp, 5050 bp, 14330 bp insertions were determined. There are also revealed 83 polymorphic sites sites in the PET2 mitochondrial genome, as compared with the fertile line Discussion. Among the revealed rearrangements the 1558 bp insertion resulted in new open reading frames formation - orf228 and orf246. The orf228 and orf246 could be the main reason for the development of PET2 CMS phenotype, whereas the role of other mtDNA reorganizations in CMS formation is negligible.

scholarly journals Mitochondrial genomes organization in alloplasmic lines of sunflower (Helianthus annuus) with various types of cytoplasmic male sterility

2018 ◽  
Author(s):  
Maksim Makarenko ◽  
Igor Kornienko ◽  
Kirill Azarin ◽  
Alexander Usatov ◽  
Maria Logacheva ◽  
...  
Keyword(s):  
Comparative Analysis ◽  
Cytoplasmic Male Sterility ◽  
Male Sterility ◽  
Helianthus Annuus ◽  
De Novo ◽  
Higher Plants ◽  
Mitochondrial Genomes ◽  
Alloplasmic Lines ◽  
Cms Line ◽  
Fertile Line

Background. Cytoplasmic male sterility (CMS) is a common phenotype in higher plants, which often is associated with rearrangements in mitochondrial DNA (mtDNA), and is widely used to produce hybrid seeds in a variety of valuable crop species. The CMS phenomenon investigations are also promote understanding of a fundamental issue of nuclear-cytoplasmic interactions in the ontogeny of higher plants. In the present study, we analyzed the structural changes in mitochondrial genomes of three alloplasmic lines of sunflower (Helianthus annuus). The investigation was focused on CMS line PET2, as there are very few reports about its mtDNA organization. Methods. The NGS sequencing, de novo assembly, and annotation of sunflower mitochondrial genomes were performed. The comparative analysis of mtDNA of HA89 fertile line and two HA89 CMS lines (PET1, PET2) occurred. Results. The mtDNA of the HA89 fertile line was almost identical to the HA412 line (NC_023337). The comparative analysis of HA89 fertile and CMS (PET1) analog mitochondrial genomes revealed 11852 bp inversion, 4732 bp insertion, and 18 variant sites. In mtDNA of HA89 (PET2) CMS line 5050 bp and 5.9 kb insertions, as well as 0.95 kb and 3.8 kb deletions, were determined. There are also revealed 83 polymorphic sites in the PET2 mitochondrial genome, as compared with the fertile line. Discussion. Among the revealed rearrangements the 5.9 kb insertion results in putative orf1053 – coxI-atp6 chimeric protein, which could be the main reason for CMS phenotype development, whereas the role of other mtDNA reorganizations in CMS formation is negligible.

scholarly journals Comparative Transcriptome Analysis of the Anthers from the Cytoplasmic Male-Sterile Pepper Line HZ1A and Its Maintainer Line HZ1B

Horticulturae ◽  
2021 ◽  
Vol 7 (12) ◽  
pp. 580
Author(s):  
Zhixing Nie ◽  
Jianying Chen ◽  
Yunpeng Song ◽  
Hongfei Fu ◽  
Hong Wang ◽  
...  
Keyword(s):  
Male Sterility ◽  
Molecular Mechanisms ◽  
Male Sterile ◽  
Maintainer Line ◽  
Breeding Programs ◽  
Kegg Pathways ◽  
Kegg Analysis ◽  
Cms Line ◽  
Phenylpropanoid Biosynthesis ◽  
Go Terms

Cytoplasmic male-sterility (CMS) is important for the utilization of crop heterosis and study of the molecular mechanisms involved in CMS could improve breeding programs. In the present study, anthers of the pepper CMS line HZ1A and its maintainer line HZ1B were collected from stages S1, S2, and S3 for transcriptome sequencing. A total of 47.95 million clean reads were obtained, and the reads were assembled into 31,603 unigenes. We obtained 42 (27 up-regulated and 15 down-regulated), 691 (346 up-regulated and 345 down-regulated), and 709 (281 up-regulated and 428 down-regulated) differentially expressed genes (DEGs) in stages S1, S2, and S3, respectively. Through Gene Ontology (GO) analysis, the DEGs were found to be composed of 46 functional groups. Two GO terms involved in photosynthesis, photosynthesis (GO:0015986) and photosystem I (GO:0009522), may be related to CMS. Through Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis, oxidative phosphorylation (ko00190) and phenylpropanoid biosynthesis (ko00940) were significantly enriched in the S1 and S2 stages, respectively. Through the analysis of 104 lipid metabolism-related DEGs, four significantly enriched KEGG pathways may help to regulate male sterility during anther development. The mitochondrial genes orf470 and atp6 were identified as candidate genes of male sterility for the CMS line HZ1A. Overall, the results will provide insights into the molecular mechanisms of pepper CMS.

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