Transcriptome analysis during fruit developmental stages in durian (Durio zibethinus Murr.) var. D24
Abstract Durian (Durio zibethinus Murr.) fruits are famous for their unique aroma. This study analysed the Durian fruit transcriptome to discover the expression patterns of genes and to understand their regulation. Three developmental stages of Durian fruit, namely, early [90 days post-anthesis (DPA...
| Main Authors: | , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Sociedade Brasileira de Genética
2023-01-01
|
| Series: | Genetics and Molecular Biology |
| Subjects: | |
| Online Access: | http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572022000500303&tlng=en |
| _version_ | 1828062509375946752 |
|---|---|
| author | Nurul Arneida Husin Sadequr Rahman Rohini Karunakaran Subhash Janardhan Bhore |
| author_facet | Nurul Arneida Husin Sadequr Rahman Rohini Karunakaran Subhash Janardhan Bhore |
| author_sort | Nurul Arneida Husin |
| collection | DOAJ |
| description | Abstract Durian (Durio zibethinus Murr.) fruits are famous for their unique aroma. This study analysed the Durian fruit transcriptome to discover the expression patterns of genes and to understand their regulation. Three developmental stages of Durian fruit, namely, early [90 days post-anthesis (DPA)], mature (120 DPA), and ripen (127 DPA), were studied. The Illumina HiSeq platform was used for sequencing. The sequence data were analysed using four different mapping aligners and statistical methods: CLC Genomic Workbench, HISAT2+DESeq2, Tophat+Cufflinks, and HISAT2+edgeR. The analyses showed that over 110 million clean reads were mapped to the Durian genome, yielding 19,976, 11,394, 17,833, and 24,351 differentially expressed genes during 90-127 days post-anthesis. Many identified differentially expressed genes were linked to the fruit ripening processes. The data analysis suggests that most genes with increased expression at the ripening stage were primarily involved in the metabolism of cofactors and vitamins, nucleotide metabolism, and carbohydrate metabolism. Significantly expressed genes from the young to mature stage were mainly associated with carbohydrate metabolism, amino acid metabolism, and cofactor and vitamin metabolism. The transcriptome data will serve as a foundation for understanding Durian fruit development-specific genes and could be helpful in fruit’s trait improvement. |
| first_indexed | 2024-04-10T22:30:03Z |
| format | Article |
| id | doaj.art-c467c7966a274bbc8eb129677a0aa3ad |
| institution | Directory Open Access Journal |
| issn | 1678-4685 |
| language | English |
| last_indexed | 2024-04-10T22:30:03Z |
| publishDate | 2023-01-01 |
| publisher | Sociedade Brasileira de Genética |
| record_format | Article |
| series | Genetics and Molecular Biology |
| spelling | doaj.art-c467c7966a274bbc8eb129677a0aa3ad2023-01-17T07:32:18ZengSociedade Brasileira de GenéticaGenetics and Molecular Biology1678-46852023-01-0145410.1590/1678-4685-gmb-2021-0379Transcriptome analysis during fruit developmental stages in durian (Durio zibethinus Murr.) var. D24Nurul Arneida Husinhttps://orcid.org/0000-0001-5211-4796Sadequr RahmanRohini KarunakaranSubhash Janardhan Bhorehttps://orcid.org/0000-0002-4894-2422Abstract Durian (Durio zibethinus Murr.) fruits are famous for their unique aroma. This study analysed the Durian fruit transcriptome to discover the expression patterns of genes and to understand their regulation. Three developmental stages of Durian fruit, namely, early [90 days post-anthesis (DPA)], mature (120 DPA), and ripen (127 DPA), were studied. The Illumina HiSeq platform was used for sequencing. The sequence data were analysed using four different mapping aligners and statistical methods: CLC Genomic Workbench, HISAT2+DESeq2, Tophat+Cufflinks, and HISAT2+edgeR. The analyses showed that over 110 million clean reads were mapped to the Durian genome, yielding 19,976, 11,394, 17,833, and 24,351 differentially expressed genes during 90-127 days post-anthesis. Many identified differentially expressed genes were linked to the fruit ripening processes. The data analysis suggests that most genes with increased expression at the ripening stage were primarily involved in the metabolism of cofactors and vitamins, nucleotide metabolism, and carbohydrate metabolism. Significantly expressed genes from the young to mature stage were mainly associated with carbohydrate metabolism, amino acid metabolism, and cofactor and vitamin metabolism. The transcriptome data will serve as a foundation for understanding Durian fruit development-specific genes and could be helpful in fruit’s trait improvement.http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572022000500303&tlng=enDurianDurio zibethinusethylenefruit ripeningtranscriptome |
| spellingShingle | Nurul Arneida Husin Sadequr Rahman Rohini Karunakaran Subhash Janardhan Bhore Transcriptome analysis during fruit developmental stages in durian (Durio zibethinus Murr.) var. D24 Genetics and Molecular Biology Durian Durio zibethinus ethylene fruit ripening transcriptome |
| title | Transcriptome analysis during fruit developmental stages in durian (Durio zibethinus Murr.) var. D24 |
| title_full | Transcriptome analysis during fruit developmental stages in durian (Durio zibethinus Murr.) var. D24 |
| title_fullStr | Transcriptome analysis during fruit developmental stages in durian (Durio zibethinus Murr.) var. D24 |
| title_full_unstemmed | Transcriptome analysis during fruit developmental stages in durian (Durio zibethinus Murr.) var. D24 |
| title_short | Transcriptome analysis during fruit developmental stages in durian (Durio zibethinus Murr.) var. D24 |
| title_sort | transcriptome analysis during fruit developmental stages in durian durio zibethinus murr var d24 |
| topic | Durian Durio zibethinus ethylene fruit ripening transcriptome |
| url | http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572022000500303&tlng=en |
| work_keys_str_mv | AT nurularneidahusin transcriptomeanalysisduringfruitdevelopmentalstagesindurianduriozibethinusmurrvard24 AT sadequrrahman transcriptomeanalysisduringfruitdevelopmentalstagesindurianduriozibethinusmurrvard24 AT rohinikarunakaran transcriptomeanalysisduringfruitdevelopmentalstagesindurianduriozibethinusmurrvard24 AT subhashjanardhanbhore transcriptomeanalysisduringfruitdevelopmentalstagesindurianduriozibethinusmurrvard24 |