BSR and Full-Length Transcriptome Approaches Identified Candidate Genes for High Seed Ratio in <i>Camellia vietnamensis</i>
(1) Background: <i>C. vietnamensis</i> is very suitable for growth in the low hilly areas of southern subtropical regions. Under appropriate conditions, the oil yield of <i>C. vietnamensis</i> can reach 1125 kg/ha (the existing varieties can reach 750 kg/ha). Moreover, the fr...
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MDPI AG
2022-12-01
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| Series: | Current Issues in Molecular Biology |
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| Online Access: | https://www.mdpi.com/1467-3045/45/1/22 |
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| author | Bing-Qing Hao Hong-Ze Liao Ying-Ying Xia Dong-Xue Wang Hang Ye |
| author_facet | Bing-Qing Hao Hong-Ze Liao Ying-Ying Xia Dong-Xue Wang Hang Ye |
| author_sort | Bing-Qing Hao |
| collection | DOAJ |
| description | (1) Background: <i>C. vietnamensis</i> is very suitable for growth in the low hilly areas of southern subtropical regions. Under appropriate conditions, the oil yield of <i>C. vietnamensis</i> can reach 1125 kg/ha (the existing varieties can reach 750 kg/ha). Moreover, the fruit of <i>C. vietnamensis</i> is large and the pericarp is thick (>5 cm). Therefore, a high seed ratio has become the main target economic trait for the breeding of <i>C. vietnamensis.</i> (2) Methods: A half-sibling population of <i>C. vietnamensis</i> plants with a combination of high and low seed ratios was constructed by crossing a <i>C. vietnamensis</i> female parent. Bulked segregant RNA analysis and full-length transcriptome sequencing were performed to determine the molecular mechanisms underlying a high seed ratio. (3) Results: Seed ratio is a complex quantitative trait with a normal distribution, which is significantly associated with four other traits of fruit (seed weight, seed number, fruit diameter, and pericarp thickness). Two candidate regions related to high seed ratio (HSR) were predicted. One spanned 140.8–148.4 Mb of chromosome 2 and was associated with 97 seed-yield-related candidate genes ranging in length from 278 to 16,628 bp. The other spanned 35.3–37.3 Mb on chromosome 15 and was associated with 38 genes ranging in length from 221 to 16,928 bp. Using the full-length transcript as a template, a total of 115 candidate transcripts were obtained, and 78 transcripts were predicted to be functionally annotated. The DEGs from two set pairs of cDNA sequencing bulks were enriched to cytochrome p450 CYP76F14 (KOG0156; GO:0055114, <i>HSR4</i>, <i>HSR7</i>), the gibberellin phytohormone pathway (GO:0016787, <i>HSR5</i>), the calcium signaling pathway (GO:0005509, <i>HSR6</i>), the polyubiquitin-PPAR signaling pathway (GO:0005515, <i>HSR2</i>, <i>HSR3</i>), and several main transcription factors (bZIP transcription factor, <i>HSR1</i>) in <i>C. vietnamensis</i>. |
| first_indexed | 2024-03-09T13:08:27Z |
| format | Article |
| id | doaj.art-38469c6ca200464186e1418f17564608 |
| institution | Directory Open Access Journal |
| issn | 1467-3037 1467-3045 |
| language | English |
| last_indexed | 2024-03-09T13:08:27Z |
| publishDate | 2022-12-01 |
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| spelling | doaj.art-38469c6ca200464186e1418f175646082023-11-30T21:45:13ZengMDPI AGCurrent Issues in Molecular Biology1467-30371467-30452022-12-0145131132610.3390/cimb45010022BSR and Full-Length Transcriptome Approaches Identified Candidate Genes for High Seed Ratio in <i>Camellia vietnamensis</i>Bing-Qing Hao0Hong-Ze Liao1Ying-Ying Xia2Dong-Xue Wang3Hang Ye4Research Institute of Tropical Forestry, Chinese Academy of Forestry, 682 Guangshan Road, Guangzhou 510630, ChinaSchool of Marine Sciences and Biotechnology, Guangxi Minzu University, 158 West Daxue Road, Nanning 530008, ChinaGuangxi Forestry Research Institute, 23 Yongwu Road, Nanning 530002, ChinaGuangxi Forestry Research Institute, 23 Yongwu Road, Nanning 530002, ChinaGuangxi Forestry Research Institute, 23 Yongwu Road, Nanning 530002, China(1) Background: <i>C. vietnamensis</i> is very suitable for growth in the low hilly areas of southern subtropical regions. Under appropriate conditions, the oil yield of <i>C. vietnamensis</i> can reach 1125 kg/ha (the existing varieties can reach 750 kg/ha). Moreover, the fruit of <i>C. vietnamensis</i> is large and the pericarp is thick (>5 cm). Therefore, a high seed ratio has become the main target economic trait for the breeding of <i>C. vietnamensis.</i> (2) Methods: A half-sibling population of <i>C. vietnamensis</i> plants with a combination of high and low seed ratios was constructed by crossing a <i>C. vietnamensis</i> female parent. Bulked segregant RNA analysis and full-length transcriptome sequencing were performed to determine the molecular mechanisms underlying a high seed ratio. (3) Results: Seed ratio is a complex quantitative trait with a normal distribution, which is significantly associated with four other traits of fruit (seed weight, seed number, fruit diameter, and pericarp thickness). Two candidate regions related to high seed ratio (HSR) were predicted. One spanned 140.8–148.4 Mb of chromosome 2 and was associated with 97 seed-yield-related candidate genes ranging in length from 278 to 16,628 bp. The other spanned 35.3–37.3 Mb on chromosome 15 and was associated with 38 genes ranging in length from 221 to 16,928 bp. Using the full-length transcript as a template, a total of 115 candidate transcripts were obtained, and 78 transcripts were predicted to be functionally annotated. The DEGs from two set pairs of cDNA sequencing bulks were enriched to cytochrome p450 CYP76F14 (KOG0156; GO:0055114, <i>HSR4</i>, <i>HSR7</i>), the gibberellin phytohormone pathway (GO:0016787, <i>HSR5</i>), the calcium signaling pathway (GO:0005509, <i>HSR6</i>), the polyubiquitin-PPAR signaling pathway (GO:0005515, <i>HSR2</i>, <i>HSR3</i>), and several main transcription factors (bZIP transcription factor, <i>HSR1</i>) in <i>C. vietnamensis</i>.https://www.mdpi.com/1467-3045/45/1/22<i>Camellia vietnamensis</i>high seed ratiobulked segregant RNA analysisfull-lengthtranscriptome sequencing |
| spellingShingle | Bing-Qing Hao Hong-Ze Liao Ying-Ying Xia Dong-Xue Wang Hang Ye BSR and Full-Length Transcriptome Approaches Identified Candidate Genes for High Seed Ratio in <i>Camellia vietnamensis</i> Current Issues in Molecular Biology <i>Camellia vietnamensis</i> high seed ratio bulked segregant RNA analysis full-lengthtranscriptome sequencing |
| title | BSR and Full-Length Transcriptome Approaches Identified Candidate Genes for High Seed Ratio in <i>Camellia vietnamensis</i> |
| title_full | BSR and Full-Length Transcriptome Approaches Identified Candidate Genes for High Seed Ratio in <i>Camellia vietnamensis</i> |
| title_fullStr | BSR and Full-Length Transcriptome Approaches Identified Candidate Genes for High Seed Ratio in <i>Camellia vietnamensis</i> |
| title_full_unstemmed | BSR and Full-Length Transcriptome Approaches Identified Candidate Genes for High Seed Ratio in <i>Camellia vietnamensis</i> |
| title_short | BSR and Full-Length Transcriptome Approaches Identified Candidate Genes for High Seed Ratio in <i>Camellia vietnamensis</i> |
| title_sort | bsr and full length transcriptome approaches identified candidate genes for high seed ratio in i camellia vietnamensis i |
| topic | <i>Camellia vietnamensis</i> high seed ratio bulked segregant RNA analysis full-lengthtranscriptome sequencing |
| url | https://www.mdpi.com/1467-3045/45/1/22 |
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