title: De novo transcriptome sequencing and sequence analysis of the malaria vector Anopheles sinensis (Diptera: Culicidae).
abstract: BACKGROUND
  Anopheles sinensis is the major malaria vector in China and Southeast Asia. Vector control is one of the most effective measures to prevent malaria transmission. However, there is little transcriptome information available for the malaria vector. To better understand the biological basis of malaria transmission and to develop novel and effective means of vector control, there is a need to build a transcriptome dataset for functional genomics analysis by large-scale RNA sequencing (RNA-seq).
  
  
  METHODS
  To provide a more comprehensive and complete transcriptome of An. sinensis, eggs, larvae, pupae, male adults and female adults RNA were pooled together for cDNA preparation, sequenced using the Illumina paired-end sequencing technology and assembled into unigenes. These unigenes were then analyzed in their genome mapping, functional annotation, homology, codon usage bias and simple sequence repeats (SSRs).
  
  
  RESULTS
  Approximately 51.6 million clean reads were obtained, trimmed, and assembled into 38,504 unigenes with an average length of 571 bp, an N50 of 711 bp, and an average GC content 51.26%. Among them, 98.4% of unigenes could be mapped onto the reference genome, and 69% of unigenes could be annotated with known biological functions. Homology analysis identified certain numbers of An. sinensis unigenes that showed homology or being putative 1:1 orthologues with genomes of other Dipteran species. Codon usage bias was analyzed and 1,904 SSRs were detected, which will provide effective molecular markers for the population genetics of this species.
  
  
  CONCLUSIONS
  Our data and analysis provide the most comprehensive transcriptomic resource and characteristics currently available for An. sinensis, and will facilitate genetic, genomic studies, and further vector control of An. sinensis.
authors.affiliation: Institute of Entomology and Molecular Biology, College of Life Sciences, Chongqing Normal University, Chongqing, P R, China. c_bin@hotmail.com.
authors.forename: Bin
authors.initials: B
authors.lastname: Chen
authors.forename: Yu-Juan
authors.initials: YJ
authors.lastname: Zhang
authors.forename: Zhengbo
authors.initials: Z
authors.lastname: He
authors.forename: Wanshun
authors.initials: W
authors.lastname: Li
authors.forename: Fengling
authors.initials: F
authors.lastname: Si
authors.forename: Yao
authors.initials: Y
authors.lastname: Tang
authors.forename: Qiyi
authors.initials: Q
authors.lastname: He
authors.forename: Liang
authors.initials: L
authors.lastname: Qiao
authors.forename: Zhentian
authors.initials: Z
authors.lastname: Yan
authors.forename: Wenbo
authors.initials: W
authors.lastname: Fu
authors.forename: Yanfei
authors.initials: Y
authors.lastname: Che
mesh_terms: D000818:Animals; D000852:Anopheles / Q000235:genetics*; D001483:Base Sequence; D018076:DNA, Complementary / Q000235:genetics; D005260:Female; D005786:Gene Expression Regulation / Q000502:physiology; D007303:Insect Vectors / Q000235:genetics*; D007814:Larva / Q000235:genetics; D008288:Malaria / Q000635:transmission*; D008297:Male; D010063:Ovum; D011679:Pupa / Q000235:genetics; D012333:RNA, Messenger / Q000235:genetics / Q000378:metabolism; D013045:Species Specificity; D059467:Transcriptome / Q000235:genetics*
chemical_list: D018076:DNA, Complementary; D012333:RNA, Messenger