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| Status |
Public on Nov 04, 2014 |
| Title |
A Y-chromosome-encoded small RNA acts as sex determinant in persimmons |
| Organism |
Diospyros lotus |
| Experiment type |
Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
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| Summary |
In plants, multiple lineages have evolved sex chromosomes independently, providing a powerful comparative framework, but few specific determinants controlling the expression of a specific sex have been identified. We investigated sex-determinants in Caucasian persimmon, Diospyros lotus, a dioecious plant with heterogametic males (XY). Male-specific short nucleotide sequences were used to define a male determining region. A combination of transcriptomics and evolutionary approaches detected a Y-specific sex-determinant candidate, OGI, that displays male-specific conservation among Diospyros species. OGI encodes a small RNA targeting the autosomal MeGI gene, a homeodomain transcription factor regulating anther fertility in dosage-dependent fashion. This identification of a feminizing gene suppressed by a Y-chromosome-encoded small RNA contributes to our understanding of the evolution of sex chromosome systems in higher plants.
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| Overall design |
For expression analyses, mixed buds were sampled on June 17, and July 4, 2013, corresponding to the early differentiation stages of male/female primordia, respectively.
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| Contributor(s) |
Akagi T, Henry IM, Tao R, Comai L |
| Citation(s) |
25359977 |
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| Submission date |
Sep 12, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Luca Comai |
| E-mail(s) |
lcomai@ucdavis.edu
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| Phone |
(530) 752-8485
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| Organization name |
UC Davis
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| Department |
Genome Center
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| Lab |
Comai Lab
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| Street address |
451 Health Sciences Dr
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| City |
Davis |
| State/province |
Calif |
| ZIP/Postal code |
95616 |
| Country |
USA |
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| Platforms (2) |
| GPL19190 |
Illumina HiSeq 2500 (Diospyros lotus) |
| GPL19191 |
Illumina HiSeq 2000 (Diospyros lotus) |
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| Samples (24)
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| Relations |
| BioProject |
PRJNA261339 |
| SRA |
SRP047248 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE61386_AllContigsIMH14_All5.txt.gz |
2.6 Mb |
(ftp)(http) |
TXT |
| GSE61386_AllMF-CLC-denovo-count-new08122014-rev_GEO.txt.gz |
5.0 Mb |
(ftp)(http) |
TXT |
| GSE61386_CLC_MF_All_DeNovo.fasta.gz |
74.4 Mb |
(ftp)(http) |
FASTA |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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