Complete chloroplast genome sequence and characteristics analysis of Qingda no.1 alfalfa (Medicago sativa L. cv. Qingda no.1)
Medicago sativa is the most widely cultivated forage legume and one of the most economically valuable crops throughout the world. Qingda no.1 (Medicago sativa L. cv. Qingda no.1) is an excellent alfalfa local variety with strong cold, drought and salt resistance in the three rivers source area of Qi...
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| Format: | Article |
| Language: | English |
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Czech Academy of Agricultural Sciences
2023-06-01
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| Series: | Czech Journal of Genetics and Plant Breeding |
| Subjects: | |
| Online Access: | https://cjgpb.agriculturejournals.cz/artkey/cjg-202303-0005_complete-chloroplast-genome-sequence-and-characteristics-analysis-of-qingda-no-1-alfalfa-medicago-sativa-l-cv.php |
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| author | Yuling Ren Yajun Ma Xue Li Xiaoan Li Guozhu Yang Ping Li |
| author_facet | Yuling Ren Yajun Ma Xue Li Xiaoan Li Guozhu Yang Ping Li |
| author_sort | Yuling Ren |
| collection | DOAJ |
| description | Medicago sativa is the most widely cultivated forage legume and one of the most economically valuable crops throughout the world. Qingda no.1 (Medicago sativa L. cv. Qingda no.1) is an excellent alfalfa local variety with strong cold, drought and salt resistance in the three rivers source area of Qinghai. In this study, the whole chloroplast (cp) genome of Qingda no.1 was sequenced, assembled and its structure was analysed by the Illumina high-throughput sequencing technology. The results showed that the chloroplast genome of Qingda no.1 exhibits no obvious typical quadripartite structure; the total length of the chloroplast genome is 125 637 bp; the chloroplast genome contained 111 genes, including 77 protein-coding genes, 30 tRNA genes, and 4 rRNA genes, with an overall GC content of 38.33%. The relative synonymous codon usage showed that 68.67% of the codons RSCU > 1 in Qingda no.1, with the preference ending with A and T. The simple sequence repeat (SSR) analysis identified 62 SSR loci. The phylogenetic analysis of the cp genome, Qingda no.1 clustered closely with Medicago sativa KU321683 (Medicago sativa L. cv. KU321683). These results are helpful for the further study of the Qingda no.1 adaptation mechanism to high altitude stress environments. |
| first_indexed | 2024-03-13T06:02:22Z |
| format | Article |
| id | doaj.art-95eb6004d1234ced82b2236c555b0587 |
| institution | Directory Open Access Journal |
| issn | 1212-1975 1805-9325 |
| language | English |
| last_indexed | 2024-03-13T06:02:22Z |
| publishDate | 2023-06-01 |
| publisher | Czech Academy of Agricultural Sciences |
| record_format | Article |
| series | Czech Journal of Genetics and Plant Breeding |
| spelling | doaj.art-95eb6004d1234ced82b2236c555b05872023-06-12T09:30:18ZengCzech Academy of Agricultural SciencesCzech Journal of Genetics and Plant Breeding1212-19751805-93252023-06-0159316016810.17221/71/2022-CJGPBcjg-202303-0005Complete chloroplast genome sequence and characteristics analysis of Qingda no.1 alfalfa (Medicago sativa L. cv. Qingda no.1)Yuling Ren0Yajun Ma1Xue Li2Xiaoan Li3Guozhu Yang4Ping Li5College of Eco-Environmental Engineering, Qinghai University, Xining, Qinghai, P.R. ChinaCollege of Agriculture and Animal Husbandry, Qinghai University, Xining, Qinghai, P.R. ChinaCollege of Eco-Environmental Engineering, Qinghai University, Xining, Qinghai, P.R. ChinaCollege of Eco-Environmental Engineering, Qinghai University, Xining, Qinghai, P.R. ChinaEcological Environment Engineering Research Center, Qinghai University, Xining, Qinghai, P.R. ChinaCollege of Eco-Environmental Engineering, Qinghai University, Xining, Qinghai, P.R. ChinaMedicago sativa is the most widely cultivated forage legume and one of the most economically valuable crops throughout the world. Qingda no.1 (Medicago sativa L. cv. Qingda no.1) is an excellent alfalfa local variety with strong cold, drought and salt resistance in the three rivers source area of Qinghai. In this study, the whole chloroplast (cp) genome of Qingda no.1 was sequenced, assembled and its structure was analysed by the Illumina high-throughput sequencing technology. The results showed that the chloroplast genome of Qingda no.1 exhibits no obvious typical quadripartite structure; the total length of the chloroplast genome is 125 637 bp; the chloroplast genome contained 111 genes, including 77 protein-coding genes, 30 tRNA genes, and 4 rRNA genes, with an overall GC content of 38.33%. The relative synonymous codon usage showed that 68.67% of the codons RSCU > 1 in Qingda no.1, with the preference ending with A and T. The simple sequence repeat (SSR) analysis identified 62 SSR loci. The phylogenetic analysis of the cp genome, Qingda no.1 clustered closely with Medicago sativa KU321683 (Medicago sativa L. cv. KU321683). These results are helpful for the further study of the Qingda no.1 adaptation mechanism to high altitude stress environments.https://cjgpb.agriculturejournals.cz/artkey/cjg-202303-0005_complete-chloroplast-genome-sequence-and-characteristics-analysis-of-qingda-no-1-alfalfa-medicago-sativa-l-cv.phpchloroplast genome sequencingmedicago sativa l. cv. qingda no.1phylogenetic analysisqinghai-tibet plateau |
| spellingShingle | Yuling Ren Yajun Ma Xue Li Xiaoan Li Guozhu Yang Ping Li Complete chloroplast genome sequence and characteristics analysis of Qingda no.1 alfalfa (Medicago sativa L. cv. Qingda no.1) Czech Journal of Genetics and Plant Breeding chloroplast genome sequencing medicago sativa l. cv. qingda no.1 phylogenetic analysis qinghai-tibet plateau |
| title | Complete chloroplast genome sequence and characteristics analysis of Qingda no.1 alfalfa (Medicago sativa L. cv. Qingda no.1) |
| title_full | Complete chloroplast genome sequence and characteristics analysis of Qingda no.1 alfalfa (Medicago sativa L. cv. Qingda no.1) |
| title_fullStr | Complete chloroplast genome sequence and characteristics analysis of Qingda no.1 alfalfa (Medicago sativa L. cv. Qingda no.1) |
| title_full_unstemmed | Complete chloroplast genome sequence and characteristics analysis of Qingda no.1 alfalfa (Medicago sativa L. cv. Qingda no.1) |
| title_short | Complete chloroplast genome sequence and characteristics analysis of Qingda no.1 alfalfa (Medicago sativa L. cv. Qingda no.1) |
| title_sort | complete chloroplast genome sequence and characteristics analysis of qingda no 1 alfalfa medicago sativa l cv qingda no 1 |
| topic | chloroplast genome sequencing medicago sativa l. cv. qingda no.1 phylogenetic analysis qinghai-tibet plateau |
| url | https://cjgpb.agriculturejournals.cz/artkey/cjg-202303-0005_complete-chloroplast-genome-sequence-and-characteristics-analysis-of-qingda-no-1-alfalfa-medicago-sativa-l-cv.php |
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