Os09g0449000

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Annotated Information

Function

Please input function information here. PERSISTANT TAPETAL CELL1 (PTC1), which controls programmed tapetal development and pollen exine formation in rice. PTC1 encodes a PHD-finger (for plant homeodomain) protein, which is expressed specifically in tapetal cells and microspores during anther development in stages 8 and 9, when the wild-type tapetal cells initiate a typical apoptosis-like cell death[1]. PTC1 may functions downstream of GAMYB[2], and in parallel with TDR in regulating programmed anther development and pollen formation[3].

Mutation

Please input mutation information Compared with wild-type plants, ptc1 exhibited normal vegetative development (Fig. 2A). During the reproductive stage, ptc1 plants developed normal panicles and floral organs (Fig. 2, B–D), but ptc1 anthers were smaller, white, and lacked viable pollen grains (Fig. 2, D and E).

From stage 9 (free microspore released from the tetrad) to early stage 10 (vacuolated microspore), ptc1 tapetal cells were more vacuolated than wild-type. From late stage 10 to stage 11 (mitosis I), ptc1 tapetum became abnormally enlarged, and cytosolic constituents seemed to be secreted into the anther locule. At stage 13, in the ptc1 anther, only cell debris of both tapetal cells and pollen grains remained. The ptc1 tapetum also appeared to have less accumulation of pollen wall precursor materials

Expression

Please input expression information

According to the RiceGE (Gene Expression Atlas Data Sources), PTC1 expression is highest in the 10- to 15-cm inflorescence (stages 7–10), gradually decreasing in the 15- to 20-cm inflorescence (stages 10–12). The data from laser microdissection coupled with microarray analysis also suggest that PTC1 is expressed in both the tapetum and microspores at stage 8. Reverse transcription (RT)-PCR and quantitative RT-PCR (RT-qPCR) results indicated that PTC1 was preferentially expressed in the anther from stage 8 to stage 9. In transgenic plants expressing the PTC1pro:GUS fusion, GUS staining was specifically detected in the anther from stages 8 to 9 and at a low level in stage 10. No GUS expression was seen in the palea, lemma, pistil or other organs, but GUS was also apparent within the microspores,

Microarray analysis

Please input Microarray analysis here. Microarray analysis revealed 2,943 genes with a 2-fold or greater expression change over the two developmental stages in ptc1 anthers compared with the wild type (570 down-regulated and 278 up-regulated at stage 8; 1,252 down-regulated and 843 up-regulated at stage 9. The 2,417 genes can be group into four COG (for Cluster of Orthologous Groups of proteins) categories: I, information storage and processing (144 genes); II, cellular processes and signaling (363 genes); III, metabolism (551 genes); and IV, poorly characterized genes (1,359 genes)

Evolution

Please input evolution information here.

You can also add sub-section(s) at will. To gain additional insights into the phylogenetic elationship between PTC1 and its close homologs, BLASTP searches were conducted with the full-length amino acid sequence of PTC1. An unrooted tree of PTC1 and its 25 homologs from moss to flowering plants was constructed. PTC1 was located in the same clade with Arabidopsis MS1.

Labs working on this gene

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School of Life Sciences and Biotechnology and State Key Laboratory of Hybrid Rice, Shanghai Jiao Tong University, Shanghai,China

Plant Sciences Division, School of Biosciences, University of Nottingham, Loughborough, Leicstershire, United Kingdom

References

Please input cited references here. [1] Hui Li, Zheng Yuan, Gema Vizcay-Barrena. et al.PERSISTENT TAPETAL CELL1 Encodes a PHD-Finger Protein That Is Required for Tapetal Cell Death and Pollen Development in Rice. Plant Physiology 156: 615–630 (2011)

[2] Aya K, Ueguchi-Tanaka M, Kondo M . et al. Gibberellin modulates anther development in rice via the transcriptional regulation of GAMYB. Plant Cell 21: 1453–1472 (2009)

[3] Li N, Zhang DS, Liu HS. et al. The rice tapetum degeneration retardation gene is required for tapetum degradation and anther development. Plant Cell 18: 2999–3014 (2006)

Structured Information

Gene Name	Os09g0449000
Description	Protein of unknown function UPF0054 family protein
Version	NM_001069854.2 GI:297609560 GeneID:4347213
Length	2215 bp
Definition	Oryza sativa Japonica Group Os09g0449000, complete gene.
Source	Oryza sativa Japonica Group ORGANISM Oryza sativa Japonica Group Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP clade; Ehrhartoideae; Oryzeae; Oryza.
Chromosome	Chromosome 9
Location	Chromosome 9:17439752..17441966
Sequence Coding Region	17439752..17440061,17440136..17440442,17440544..17441966
Expression	GEO Profiles:Os09g0449000
Genome Context	<gbrowseImage1> name=NC_008402:17439752..17441966 source=RiceChromosome09 preset=GeneLocation </gbrowseImage1>
Gene Structure	<gbrowseImage2> name=NC_008402:17439752..17441966 source=RiceChromosome09 preset=GeneLocation </gbrowseImage2>
Coding Sequence	<cdnaseq>atggcgcctaagatggtgatcagcctggggagctcgcggcggcggaagcgcggcgagatgctgttccggttcgaggccttctgccagcccggctacccggcgaacttcgccggcgccggcggcttcagggacaacgtgaggacgctgctcggcttcgcgcacctggaggccggcgtccacggcgagaccaagtgctggtcgttccagctcgagctgcaccgccacccccccaccgtcgtgaggctcttcgtcgtcgaggaggaggtcgccgcctcgccgcaccgccagtgccacctctgccgccatattgggtgggggaggcatctgatatgcagcaagaggtatcacttcttgctgccgaggagggaatcggcggcggaagccgacggcctgtgcttcgcgatcaaccacggcggcggcggtggcgcggagaaagcgtcgtcgaaagggacgacgacgacggcctccagcagaggccacctgctacacggcgtcgtgcacctcaacggctacggccacctcgtcgccctccacggcctcgagggcggctccgacttcgtctccggccaccagatcatggacctctgggaccgcatttgctcagccttgcacgtaaggacggtgagcctggtggacacggcgaggaagggccacatggagctgaggctgctgcacggcgtcgcgtacggcgagacgtggttcgggcggtgggggtacaggtacggccggccgagctacggcgtcgcgctgccgtcgtaccggcagtcgctgcacgtgctcggctccatgccgctctgcgtgctggtgccgcacctgtcgtgcttcagccaggagctccccatggtggtcaccaagtaccaggccatcagcggccacaagctgctcagcctcggcgacctcctccgcttcatgctcgagctgcgcgcccgcctgccggccacctccgtcacggccatggactaccggggcatcatgtcggaggcctcgtgccggtggtcggcgaagcgcgtcgacatggcggcgcgcgccgtcgtggacgcgctccgccgcgccgagccggcggcgcggtgggtcacgcggcaggaggtgcgcgacgcggcgcgcgcctacatcggcgacacgggcctcctcgacttcgtgctcaagtccctcggcaaccacatcgtcggcaactacgtcgtgcgccgcaccatgaacccggtgaccaaggtgctcgagtactgcctcgaggacgtctccagcgtgctcccggcggtcgccgccggcggcggcgtgccggcgcagggcaagatgagggtgaggttccagctcacgcgtgcgcagctcatgagggacctggtgcacctgtaccggcacgtgctcaaggagcccagccaggcgctcaccggcggcgcgttcggcgcgatcccggtggcggtgcggatggtcctggacatcaagcacttcgtcaaagattaccacgaaggacaagccgcggcgagcagcaatggcggtggcggattcgggcatccccacatcaacctgtgctgcacgctgctcgtgagcaacgggagcccggagctagctccaccgtacgagacggtgaccctgccggcgcacgcgacggtgggcgagctgaagtgggaggcgcagagggtgttcagcgagatgtacctcggcctgaggagcttcgcggcggactccgtcgtcggggtcggcgccgaccaggagggcctcccggtgctcgggctggtcgacgtcggaagcgccgtcgtggtgcaagggagcgtgggcgagcagataaacggggaggaccacgagaggaaggaggaggcggcggcggcggccgtgtgcgaggggagcggcggcggcgagcgcgtcgtggactgcgcgtgcggcgcggtggacgacgacggcgagcgcatggcgtgctgcgacatctgcgaggcgtggcagcacacgcggtgcgccgggatcgcggacaccgaggacgcgccgcacgtcttcctctgcagccggtgcgacaacgacgtcgtgtcgttcccgtccttcaactgttag</cdnaseq>
Protein Sequence	<aaseq>MAPKMVISLGSSRRRKRGEMLFRFEAFCQPGYPANFAGAGGFRD NVRTLLGFAHLEAGVHGETKCWSFQLELHRHPPTVVRLFVVEEEVAASPHRQCHLCRH IGWGRHLICSKRYHFLLPRRESAAEADGLCFAINHGGGGGAEKASSKGTTTTASSRGH LLHGVVHLNGYGHLVALHGLEGGSDFVSGHQIMDLWDRICSALHVRTVSLVDTARKGH MELRLLHGVAYGETWFGRWGYRYGRPSYGVALPSYRQSLHVLGSMPLCVLVPHLSCFS QELPMVVTKYQAISGHKLLSLGDLLRFMLELRARLPATSVTAMDYRGIMSEASCRWSA KRVDMAARAVVDALRRAEPAARWVTRQEVRDAARAYIGDTGLLDFVLKSLGNHIVGNY VVRRTMNPVTKVLEYCLEDVSSVLPAVAAGGGVPAQGKMRVRFQLTRAQLMRDLVHLY RHVLKEPSQALTGGAFGAIPVAVRMVLDIKHFVKDYHEGQAAASSNGGGGFGHPHINL CCTLLVSNGSPELAPPYETVTLPAHATVGELKWEAQRVFSEMYLGLRSFAADSVVGVG ADQEGLPVLGLVDVGSAVVVQGSVGEQINGEDHERKEEAAAAAVCEGSGGGERVVDCA CGAVDDDGERMACCDICEAWQHTRCAGIADTEDAPHVFLCSRCDNDVVSFPSFNC</aaseq>
Gene Sequence	<dnaseqindica>1..310#385..691#793..2215#atggcgcctaagatggtgatcagcctggggagctcgcggcggcggaagcgcggcgagatgctgttccggttcgaggccttctgccagcccggctacccggcgaacttcgccggcgccggcggcttcagggacaacgtgaggacgctgctcggcttcgcgcacctggaggccggcgtccacggcgagaccaagtgctggtcgttccagctcgagctgcaccgccacccccccaccgtcgtgaggctcttcgtcgtcgaggaggaggtcgccgcctcgccgcaccgccagtgccacctctgccgccatattggtccgtcgaacaaactacaattaatcaatcaacctttacataggattgatccgatcgatgccatggtgttgtagggtgggggaggcatctgatatgcagcaagaggtatcacttcttgctgccgaggagggaatcggcggcggaagccgacggcctgtgcttcgcgatcaaccacggcggcggcggtggcgcggagaaagcgtcgtcgaaagggacgacgacgacggcctccagcagaggccacctgctacacggcgtcgtgcacctcaacggctacggccacctcgtcgccctccacggcctcgagggcggctccgacttcgtctccggccaccagatcatggacctctgggaccgcatttgctcagccttgcacgtaaggtagtagtagtatacatgtgcgtgtgcatgcatgcaagcaatgcaacgatgtcgggctgcgtgtgagaacatttgcttgggcatggtgtggtgtatgcaaggacggtgagcctggtggacacggcgaggaagggccacatggagctgaggctgctgcacggcgtcgcgtacggcgagacgtggttcgggcggtgggggtacaggtacggccggccgagctacggcgtcgcgctgccgtcgtaccggcagtcgctgcacgtgctcggctccatgccgctctgcgtgctggtgccgcacctgtcgtgcttcagccaggagctccccatggtggtcaccaagtaccaggccatcagcggccacaagctgctcagcctcggcgacctcctccgcttcatgctcgagctgcgcgcccgcctgccggccacctccgtcacggccatggactaccggggcatcatgtcggaggcctcgtgccggtggtcggcgaagcgcgtcgacatggcggcgcgcgccgtcgtggacgcgctccgccgcgccgagccggcggcgcggtgggtcacgcggcaggaggtgcgcgacgcggcgcgcgcctacatcggcgacacgggcctcctcgacttcgtgctcaagtccctcggcaaccacatcgtcggcaactacgtcgtgcgccgcaccatgaacccggtgaccaaggtgctcgagtactgcctcgaggacgtctccagcgtgctcccggcggtcgccgccggcggcggcgtgccggcgcagggcaagatgagggtgaggttccagctcacgcgtgcgcagctcatgagggacctggtgcacctgtaccggcacgtgctcaaggagcccagccaggcgctcaccggcggcgcgttcggcgcgatcccggtggcggtgcggatggtcctggacatcaagcacttcgtcaaagattaccacgaaggacaagccgcggcgagcagcaatggcggtggcggattcgggcatccccacatcaacctgtgctgcacgctgctcgtgagcaacgggagcccggagctagctccaccgtacgagacggtgaccctgccggcgcacgcgacggtgggcgagctgaagtgggaggcgcagagggtgttcagcgagatgtacctcggcctgaggagcttcgcggcggactccgtcgtcggggtcggcgccgaccaggagggcctcccggtgctcgggctggtcgacgtcggaagcgccgtcgtggtgcaagggagcgtgggcgagcagataaacggggaggaccacgagaggaaggaggaggcggcggcggcggccgtgtgcgaggggagcggcggcggcgagcgcgtcgtggactgcgcgtgcggcgcggtggacgacgacggcgagcgcatggcgtgctgcgacatctgcgaggcgtggcagcacacgcggtgcgccgggatcgcggacaccgaggacgcgccgcacgtcttcctctgcagccggtgcgacaacgacgtcgtgtcgttcccgtccttcaactgttag</dnaseqindica>
External Link(s)	NCBI Gene:Os09g0449000, RefSeq:Os09g0449000