RT Journal
A1 Chaerkady, Raghothama
A1 Kelkar, Dhanashree S.
A1 Muthusamy, Babylakshmi
A1 Kandasamy, Kumaran
A1 Dwivedi, Sutopa B.
A1 Sahasrabuddhe, Nandini A.
A1 Kim, Min-Sik
A1 Renuse, Santosh
A1 Pinto, Sneha M.
A1 Sharma, Rakesh
A1 Pawar, Harsh
A1 Sekhar, Nirujogi Raja
A1 Mohanty, Ajeet Kumar
A1 Getnet, Derese
A1 Yang, Yi
A1 Zhong, Jun
A1 Dash, Aditya P.
A1 MacCallum, Robert M.
A1 Delanghe, Bernard
A1 Mlambo, Godfree
A1 Kumar, Ashwani
A1 Keshava Prasad, T.S.
A1 Okulate, Mobolaji
A1 Kumar, Nirbhay
A1 Pandey, Akhilesh
T1 A proteogenomic analysis of Anopheles gambiae using high-resolution Fourier transform mass spectrometry
JF Genome Research 
JO Genome Research 
YR 2011 
FD November 01 
VO 21 
IS 11 
SP 1872 
OP 1881 
DO 10.1101/gr.127951.111 
UL http://genome.cshlp.org/content/21/11/1872.abstract 
AB Anopheles gambiae is a major mosquito vector responsible for malaria transmission, whose genome sequence was reported in 2002. Genome annotation is a continuing effort, and many of the approximately 13,000 genes listed in VectorBase for Anopheles gambiae are predictions that have still not been validated by any other method. To identify protein-coding genes of An. gambiae based on its genomic sequence, we carried out a deep proteomic analysis using high-resolution Fourier transform mass spectrometry for both precursor and fragment ions. Based on peptide evidence, we were able to support or correct more than 6000 gene annotations including 80 novel gene structures and about 500 translational start sites. An additional validation by RT-PCR and cDNA sequencing was successfully performed for 105 selected genes. Our proteogenomic analysis led to the identification of 2682 genome search–specific peptides. Numerous cases of encoded proteins were documented in regions annotated as intergenic, introns, or untranslated regions. Using a database created to contain potential splice sites, we also identified 35 novel splice junctions. This is a first report to annotate the An. gambiae genome using high-accuracy mass spectrometry data as a complementary technology for genome annotation.