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Publication Details
AFRICAN RESEARCH NEXUS
SHINING A SPOTLIGHT ON AFRICAN RESEARCH
Sequencing, analysis, and annotation of expressed sequence tags for Camelus dromedaries
PLoS ONE, Volume 5, No. 5, Article e10720, Year 2010
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Description
Despite its economical, cultural, and biological importance, there has not been a large scale sequencing project to date for Camelus dromedarius. With the goal of sequencing complete DNA of the organism, we first established and sequenced camel EST libraries, generating 70,272 reads. Following trimming, chimera check, repeat masking, cluster and assembly, we obtained 23,602 putative gene sequences, out of which over 4,500 potentially novel or fast evolving gene sequences do not carry any homology to other available genomes. Functional annotation of sequences with similarities in nucleotide and protein databases has been obtained using Gene Ontology classification. Comparison to available full length cDNA sequences and Open Reading Frame (ORF) analysis of camel sequences that exhibit homology to known genes show more than 80% of the contigs with an ORF>300 bp and ∼40% hits extending to the start codons of full length cDNAs suggesting successful characterization of camel genes. Similarity analyses are done separately for different organisms including human, mouse, bovine, and rat. Accompanying web portal, CAGBASE (http://camel.kacst.edu.sa/), hosts a relational database containing annotated EST sequences and analysis tools with possibility to add sequences from public domain. We anticipate our results to provide a home base for genomic studies of camel and other comparative studies enabling a starting point for whole genome sequencing of the organism. © 2010 Al-Swailem et al.
Authors & Co-Authors
Al-Swailem, Abdulaziz M.
Saudi Arabia, Riyadh
King Abdulaziz City for Science and Technology
Shehata, Maher Mohamed
Saudi Arabia, Riyadh
King Abdulaziz City for Science and Technology
Abu-Duhier, Faisel Mohammed
Saudi Arabia, Riyadh
King Abdulaziz City for Science and Technology
Al-Yamani, Essam J.
Saudi Arabia, Riyadh
King Abdulaziz City for Science and Technology
Al-Busadah, Khalid Ahmed S.
Saudi Arabia, Al-ahsa
King Faisal University
Al-Arawi, Mohammed S.
Saudi Arabia, Riyadh
King Abdulaziz City for Science and Technology
Al-Khider, Ali Y.
Saudi Arabia, Riyadh
King Abdulaziz City for Science and Technology
Al-Muhaimeed, Abdullah N.
Saudi Arabia, Riyadh
King Abdulaziz City for Science and Technology
Al-Qahtani, Fahad H.
Saudi Arabia, Riyadh
King Abdulaziz City for Science and Technology
Manee, Manee M.
Saudi Arabia, Riyadh
King Abdulaziz City for Science and Technology
Al-Shomrani, Badr M.
Saudi Arabia, Riyadh
King Abdulaziz City for Science and Technology
Al-Qhtani, Saad M.
Saudi Arabia, Riyadh
King Abdulaziz City for Science and Technology
Al-Harthi, Amer S.
Saudi Arabia, Riyadh
King Abdulaziz City for Science and Technology
Akdemir, Kadir Caner
United States, Boston
Harvard Medical School
Inan, Mehmet S.
Saudi Arabia, Riyadh
King Abdulaziz City for Science and Technology
Otu, Hasan H.
Saudi Arabia, Riyadh
King Abdulaziz City for Science and Technology
United States, Boston
Harvard Medical School
Statistics
Citations: 42
Authors: 16
Affiliations: 3
Identifiers
Doi:
10.1371/journal.pone.0010720
e-ISSN:
19326203
Research Areas
Genetics And Genomics