title: Comparative transcripts profiling reveals new insight into molecular processes regulating lycopene accumulation in a sweet orange (Citrus sinensis) red-flesh mutant.
abstract: BACKGROUND
  Interest in lycopene metabolism and regulation is growing rapidly because accumulative studies have suggested an important role for lycopene in human health promotion. However, little is known about the molecular processes regulating lycopene accumulation in fruits other than tomato so far.
  
  
  RESULTS
  On a spontaneous sweet orange bud mutant with abnormal lycopene accumulation in fruits and its wild type, comparative transcripts profiling was performed using Massively Parallel Signature Sequencing (MPSS). A total of 6,877,027 and 6,275,309 reliable signatures were obtained for the wild type (WT) and the mutant (MT), respectively. Interpretation of the MPSS signatures revealed that the total number of transcribed gene in MT is 18,106, larger than that in WT 17,670, suggesting that newly initiated transcription occurs in the MT. Further comparison of the transcripts abundance between MT and WT revealed that 3,738 genes show more than two fold expression difference, and 582 genes are up- or down-regulated at 0.05% significance level by more than three fold difference. Functional assignments of the differentially expressed genes indicated that 26 reliable metabolic pathways are altered in the mutant; the most noticeable ones are carotenoid biosynthesis, photosynthesis, and citrate cycle. These data suggest that enhanced photosynthesis and partial impairment of lycopene downstream flux are critical for the formation of lycopene accumulation trait in the mutant.
  
  
  CONCLUSIONS
  This study provided a global picture of the gene expression changes in a sweet orange red-flesh mutant as compared to the wild type. Interpretation of the differentially expressed genes revealed new insight into the molecular processes regulating lycopene accumulation in the sweet orange red-flesh mutant.
authors.affiliation: National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, Hubei, PR China. xuqiang@mail.hzau.edu.cn
authors.forename: Qiang
authors.initials: Q
authors.lastname: Xu
authors.forename: Keqin
authors.initials: K
authors.lastname: Yu
authors.forename: Andan
authors.initials: A
authors.lastname: Zhu
authors.forename: Junli
authors.initials: J
authors.lastname: Ye
authors.forename: Qing
authors.initials: Q
authors.lastname: Liu
authors.forename: Jianchen
authors.initials: J
authors.lastname: Zhang
authors.forename: Xiuxin
authors.initials: X
authors.lastname: Deng
mesh_terms: D002338:Carotenoids / Q000378:metabolism*; D002734:Chlorophyll / Q000378:metabolism; D032084:Citrus sinensis / Q000033:anatomy & histology / Q000235:genetics* / Q000378:metabolism*; D016373:DNA, Antisense / Q000235:genetics; D005638:Fruit / Q000033:anatomy & histology / Q000235:genetics* / Q000378:metabolism*; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant; D017343:Genes, Plant / Q000235:genetics; D023281:Genomics; D000077276:Lycopene; D009154:Mutation; D010788:Photosynthesis; D010858:Pigmentation; D012333:RNA, Messenger / Q000235:genetics; D017422:Sequence Analysis, DNA; D014158:Transcription, Genetic
chemical_list: D016373:DNA, Antisense; D012333:RNA, Messenger; D002734:Chlorophyll; D002338:Carotenoids; D000077276:Lycopene