RNASeq data from Indonesian recalcitrant and non-recalcitrant rice varieties on anther culture
The assembly of dihaploid rice plants through anther culture was constrained due to the recalcitrant properties. A comprehensive investigation of gene expression patterns among rice varieties with recalcitrant and non-recalcitrant anthers will help to understand the cellular mechanisms and biologica...
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| Format: | Article |
| Language: | English |
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Elsevier
2022-12-01
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| Series: | Data in Brief |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2352340922009635 |
| _version_ | 1811310902740254720 |
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| author | Siti Fatimah Mohammad Syafii Siti Zulaeha Mega Dewi Haristianita Devit Purwoko |
| author_facet | Siti Fatimah Mohammad Syafii Siti Zulaeha Mega Dewi Haristianita Devit Purwoko |
| author_sort | Siti Fatimah |
| collection | DOAJ |
| description | The assembly of dihaploid rice plants through anther culture was constrained due to the recalcitrant properties. A comprehensive investigation of gene expression patterns among rice varieties with recalcitrant and non-recalcitrant anthers will help to understand the cellular mechanisms and biological processes of recalcitrant properties in rice anther cultures. Therefore, we performed RNA sequencing and analysis on the anthers of three selected Indonesian rice varieties with opposite recalcitrant properties. The varieties are Fatmawati with non-recalcitrant properties, IR64 recalcitrant and Tarabas unknown. The Illumina NextSeq PE150 sequencer was used to generate a total crude nucleotide of approximately 41.21 Gb in size. From 272,239,682 total paired final raw reads, 137,343,391 total net reads were obtained and uploaded to NCBI's Sequence Read Archive (SRA) repository under BioProject accession number PRJNA856048. This dataset allowed us to identify and profile all expressed genes with functions associated with recalcitrant and non-recalcitrant properties. In addition, the transcriptome data obtained will be valuable for the discovery of potential gene markers and functional SNPs associated with functional traits to assist rice breeding programs through the development of Marker Assisted Selection (MAS). |
| first_indexed | 2024-04-13T10:08:19Z |
| format | Article |
| id | doaj.art-37223b85b0334c108fcd2e8c0fccbb09 |
| institution | Directory Open Access Journal |
| issn | 2352-3409 |
| language | English |
| last_indexed | 2024-04-13T10:08:19Z |
| publishDate | 2022-12-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Data in Brief |
| spelling | doaj.art-37223b85b0334c108fcd2e8c0fccbb092022-12-22T02:51:01ZengElsevierData in Brief2352-34092022-12-0145108760RNASeq data from Indonesian recalcitrant and non-recalcitrant rice varieties on anther cultureSiti Fatimah0Mohammad Syafii1Siti Zulaeha2Mega Dewi Haristianita3Devit Purwoko4Agrotechnology Study Program, Faculty of Agriculture, Trunojoyo University, Unijoyo Campus, Telang, PO. BOX 2 Kamal – Bangkalan, East Java, IndonesiaAgrotechnology Study Program, Faculty of Agriculture, Trunojoyo University, Unijoyo Campus, Telang, PO. BOX 2 Kamal – Bangkalan, East Java, IndonesiaResearch Center for Genetic Engineering, Research Organization for Life Sciences and Environment, National Research and Innovation Agency, Building No. 630 PUSPIPTEK South Tangerang Banten 15314, IndonesiaThe University of Tokyo 7 Chome-3-1 Hongo, Bunkyo City, Tokyo 113-8654, JepangResearch Center for Genetic Engineering, Research Organization for Life Sciences and Environment, National Research and Innovation Agency, Building No. 630 PUSPIPTEK South Tangerang Banten 15314, Indonesia; Corresponding author.The assembly of dihaploid rice plants through anther culture was constrained due to the recalcitrant properties. A comprehensive investigation of gene expression patterns among rice varieties with recalcitrant and non-recalcitrant anthers will help to understand the cellular mechanisms and biological processes of recalcitrant properties in rice anther cultures. Therefore, we performed RNA sequencing and analysis on the anthers of three selected Indonesian rice varieties with opposite recalcitrant properties. The varieties are Fatmawati with non-recalcitrant properties, IR64 recalcitrant and Tarabas unknown. The Illumina NextSeq PE150 sequencer was used to generate a total crude nucleotide of approximately 41.21 Gb in size. From 272,239,682 total paired final raw reads, 137,343,391 total net reads were obtained and uploaded to NCBI's Sequence Read Archive (SRA) repository under BioProject accession number PRJNA856048. This dataset allowed us to identify and profile all expressed genes with functions associated with recalcitrant and non-recalcitrant properties. In addition, the transcriptome data obtained will be valuable for the discovery of potential gene markers and functional SNPs associated with functional traits to assist rice breeding programs through the development of Marker Assisted Selection (MAS).http://www.sciencedirect.com/science/article/pii/S2352340922009635Oryza sativaAnther cultureDihaploidRecalcitrantTranscriptomics |
| spellingShingle | Siti Fatimah Mohammad Syafii Siti Zulaeha Mega Dewi Haristianita Devit Purwoko RNASeq data from Indonesian recalcitrant and non-recalcitrant rice varieties on anther culture Data in Brief Oryza sativa Anther culture Dihaploid Recalcitrant Transcriptomics |
| title | RNASeq data from Indonesian recalcitrant and non-recalcitrant rice varieties on anther culture |
| title_full | RNASeq data from Indonesian recalcitrant and non-recalcitrant rice varieties on anther culture |
| title_fullStr | RNASeq data from Indonesian recalcitrant and non-recalcitrant rice varieties on anther culture |
| title_full_unstemmed | RNASeq data from Indonesian recalcitrant and non-recalcitrant rice varieties on anther culture |
| title_short | RNASeq data from Indonesian recalcitrant and non-recalcitrant rice varieties on anther culture |
| title_sort | rnaseq data from indonesian recalcitrant and non recalcitrant rice varieties on anther culture |
| topic | Oryza sativa Anther culture Dihaploid Recalcitrant Transcriptomics |
| url | http://www.sciencedirect.com/science/article/pii/S2352340922009635 |
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