Complete chloroplast genome sequence of Lens ervoides and comparison to Lens culinaris
Abstract Lens is a member of the Papilionoideae subfamily of Fabaceae and is generally used as a source of vegetable protein as part of human diets in many regions worldwide. Chloroplast (cp) genomes are highly active genetic components of plants and can be utilized as molecular markers for various...
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2022-09-01
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| Series: | Scientific Reports |
| Online Access: | https://doi.org/10.1038/s41598-022-17877-7 |
| _version_ | 1811211772036644864 |
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| author | Nurbanu Tayşi Yasin Kaymaz Duygu Ateş Hatice Sari Cengiz Toker M. Bahattin Tanyolaç |
| author_facet | Nurbanu Tayşi Yasin Kaymaz Duygu Ateş Hatice Sari Cengiz Toker M. Bahattin Tanyolaç |
| author_sort | Nurbanu Tayşi |
| collection | DOAJ |
| description | Abstract Lens is a member of the Papilionoideae subfamily of Fabaceae and is generally used as a source of vegetable protein as part of human diets in many regions worldwide. Chloroplast (cp) genomes are highly active genetic components of plants and can be utilized as molecular markers for various purposes. As one of the wild lentil species, the Lens ervoides cp genome has been sequenced for the first time in this study using next-generation sequencing. The de novo assembly of the cp genome resulted in a single 122,722 bp sequence as two separate coexisting structural haplotypes with similar lengths. Results indicated that the cp genome of L. ervoides belongs to the inverted repeat lacking clade. Several noteworthy divergences within the coding regions were observed in ndhB, ndhF, rbcL, rpoC2, and ycf2 genes. Analysis of relative synonymous codon usage showed that certain genes, psbN, psaI, psbI, psbE, psbK, petD, and ndhC, preferred using biased codons more often and therefore might have elevated expression and translation efficiencies. Overall, this study exhibited the divergence level between the wild-type and cultured lentil cp genomes and pointed to certain regions that can be utilized as distinction markers for various goals. |
| first_indexed | 2024-04-12T05:18:12Z |
| format | Article |
| id | doaj.art-79c823fe5ef24501bfd28118f2fd3802 |
| institution | Directory Open Access Journal |
| issn | 2045-2322 |
| language | English |
| last_indexed | 2024-04-12T05:18:12Z |
| publishDate | 2022-09-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj.art-79c823fe5ef24501bfd28118f2fd38022022-12-22T03:46:34ZengNature PortfolioScientific Reports2045-23222022-09-0112111310.1038/s41598-022-17877-7Complete chloroplast genome sequence of Lens ervoides and comparison to Lens culinarisNurbanu Tayşi0Yasin Kaymaz1Duygu Ateş2Hatice Sari3Cengiz Toker4M. Bahattin Tanyolaç5Bioengineering Department, Faculty of Engineering, Ege UniversityBioengineering Department, Faculty of Engineering, Ege UniversityBioengineering Department, Faculty of Engineering, Ege UniversityDepartment of Field Crops, Faculty of Agriculture, Akdeniz UniversityDepartment of Field Crops, Faculty of Agriculture, Akdeniz UniversityBioengineering Department, Faculty of Engineering, Ege UniversityAbstract Lens is a member of the Papilionoideae subfamily of Fabaceae and is generally used as a source of vegetable protein as part of human diets in many regions worldwide. Chloroplast (cp) genomes are highly active genetic components of plants and can be utilized as molecular markers for various purposes. As one of the wild lentil species, the Lens ervoides cp genome has been sequenced for the first time in this study using next-generation sequencing. The de novo assembly of the cp genome resulted in a single 122,722 bp sequence as two separate coexisting structural haplotypes with similar lengths. Results indicated that the cp genome of L. ervoides belongs to the inverted repeat lacking clade. Several noteworthy divergences within the coding regions were observed in ndhB, ndhF, rbcL, rpoC2, and ycf2 genes. Analysis of relative synonymous codon usage showed that certain genes, psbN, psaI, psbI, psbE, psbK, petD, and ndhC, preferred using biased codons more often and therefore might have elevated expression and translation efficiencies. Overall, this study exhibited the divergence level between the wild-type and cultured lentil cp genomes and pointed to certain regions that can be utilized as distinction markers for various goals.https://doi.org/10.1038/s41598-022-17877-7 |
| spellingShingle | Nurbanu Tayşi Yasin Kaymaz Duygu Ateş Hatice Sari Cengiz Toker M. Bahattin Tanyolaç Complete chloroplast genome sequence of Lens ervoides and comparison to Lens culinaris Scientific Reports |
| title | Complete chloroplast genome sequence of Lens ervoides and comparison to Lens culinaris |
| title_full | Complete chloroplast genome sequence of Lens ervoides and comparison to Lens culinaris |
| title_fullStr | Complete chloroplast genome sequence of Lens ervoides and comparison to Lens culinaris |
| title_full_unstemmed | Complete chloroplast genome sequence of Lens ervoides and comparison to Lens culinaris |
| title_short | Complete chloroplast genome sequence of Lens ervoides and comparison to Lens culinaris |
| title_sort | complete chloroplast genome sequence of lens ervoides and comparison to lens culinaris |
| url | https://doi.org/10.1038/s41598-022-17877-7 |
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