TY  - JOUR
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
Y1  - 2011/11/01 
JF  - Genome Research 
JO  - Genome Research 
SP  - 1872 
EP  - 1881 
DO  - 10.1101/gr.127951.111 
VL  - 21 
IS  - 11 
UR  - http://genome.cshlp.org/content/21/11/1872.abstract 
N2  - 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. 
ER  -