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Transcriptome sequencing and de novo analysis of a cytoplasmic male sterile line and its near-isogenic restorer line in chili pepper (Capsicum annuum L.).

Liu C, Ma N, Wang PY, Fu N, Shen HL - PLoS ONE (2013)

Bottom Line: Among these unigenes, 27,191 were identified as putative homologs of annotated sequences in the public protein databases, 4,326 and 7,061 unigenes were found to be highly abundant in lines 121A and 121C, respectively.Many of the differentially expressed unigenes represent a set of potential candidate genes associated with the formation or abortion of pollen.The results shed the lights on the occurrence and recovery of the disturbances in nuclear-mitochondrial interaction and provide clues for further investigations.

View Article: PubMed Central - PubMed

Affiliation: China Agricultural University, Beijing, China.

ABSTRACT

Background: The use of cytoplasmic male sterility (CMS) in F1 hybrid seed production of chili pepper is increasingly popular. However, the molecular mechanisms of cytoplasmic male sterility and fertility restoration remain poorly understood due to limited transcriptomic and genomic data. Therefore, we analyzed the difference between a CMS line 121A and its near-isogenic restorer line 121C in transcriptome level using next generation sequencing technology (NGS), aiming to find out critical genes and pathways associated with the male sterility.

Results: We generated approximately 53 million sequencing reads and assembled de novo, yielding 85,144 high quality unigenes with an average length of 643 bp. Among these unigenes, 27,191 were identified as putative homologs of annotated sequences in the public protein databases, 4,326 and 7,061 unigenes were found to be highly abundant in lines 121A and 121C, respectively. Many of the differentially expressed unigenes represent a set of potential candidate genes associated with the formation or abortion of pollen.

Conclusions: Our study profiled anther transcriptomes of a chili pepper CMS line and its restorer line. The results shed the lights on the occurrence and recovery of the disturbances in nuclear-mitochondrial interaction and provide clues for further investigations.

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Related in: MedlinePlus

Numbers of unigenes expressed in 121A and 121C.
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pone-0065209-g005: Numbers of unigenes expressed in 121A and 121C.

Mentions: After calculation, expression of each unigene was obtained. Using the restorer line as a reference, 4,326 up-regulated unigenes (with higher expressions in the sterile line) and 7,061 down-regulated unigenes (with higher expressions in the restorer line) were identified (Table S3). Results showed that the number of down-regulated unigenes was obviously larger than that of up-regulated unigenes (Figure 4). In addition, 9,224 and 13,568 specific unigenes were found in the sterile line and the restorer line, respectively (Figure 5).


Transcriptome sequencing and de novo analysis of a cytoplasmic male sterile line and its near-isogenic restorer line in chili pepper (Capsicum annuum L.).

Liu C, Ma N, Wang PY, Fu N, Shen HL - PLoS ONE (2013)

Numbers of unigenes expressed in 121A and 121C.
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC3672106&req=5

pone-0065209-g005: Numbers of unigenes expressed in 121A and 121C.
Mentions: After calculation, expression of each unigene was obtained. Using the restorer line as a reference, 4,326 up-regulated unigenes (with higher expressions in the sterile line) and 7,061 down-regulated unigenes (with higher expressions in the restorer line) were identified (Table S3). Results showed that the number of down-regulated unigenes was obviously larger than that of up-regulated unigenes (Figure 4). In addition, 9,224 and 13,568 specific unigenes were found in the sterile line and the restorer line, respectively (Figure 5).

Bottom Line: Among these unigenes, 27,191 were identified as putative homologs of annotated sequences in the public protein databases, 4,326 and 7,061 unigenes were found to be highly abundant in lines 121A and 121C, respectively.Many of the differentially expressed unigenes represent a set of potential candidate genes associated with the formation or abortion of pollen.The results shed the lights on the occurrence and recovery of the disturbances in nuclear-mitochondrial interaction and provide clues for further investigations.

View Article: PubMed Central - PubMed

Affiliation: China Agricultural University, Beijing, China.

ABSTRACT

Background: The use of cytoplasmic male sterility (CMS) in F1 hybrid seed production of chili pepper is increasingly popular. However, the molecular mechanisms of cytoplasmic male sterility and fertility restoration remain poorly understood due to limited transcriptomic and genomic data. Therefore, we analyzed the difference between a CMS line 121A and its near-isogenic restorer line 121C in transcriptome level using next generation sequencing technology (NGS), aiming to find out critical genes and pathways associated with the male sterility.

Results: We generated approximately 53 million sequencing reads and assembled de novo, yielding 85,144 high quality unigenes with an average length of 643 bp. Among these unigenes, 27,191 were identified as putative homologs of annotated sequences in the public protein databases, 4,326 and 7,061 unigenes were found to be highly abundant in lines 121A and 121C, respectively. Many of the differentially expressed unigenes represent a set of potential candidate genes associated with the formation or abortion of pollen.

Conclusions: Our study profiled anther transcriptomes of a chili pepper CMS line and its restorer line. The results shed the lights on the occurrence and recovery of the disturbances in nuclear-mitochondrial interaction and provide clues for further investigations.

Show MeSH
Related in: MedlinePlus