Re-Annotation of Two Hyperthermophilic Archaea <Emphasis Type="Italic">Pyrococcus abyssi</Emphasis> GE5 and <Emphasis Type="Italic">Pyrococcus furiosus</Emphasis> DSM 3638 |
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Authors: | Email author" target="_blank">Junxiang?GaoEmail author Ji?Wang |
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Institution: | (1) School of Science, Huazhong Agricultural University, Wuhan, 430070, People’s Republic of China;(2) Department of Marine Biology, Ocean University of China, Qingdao, 266003, People’s Republic of China |
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Abstract: | Pyrococcus abyssi GE5 (P. aby) and Pyrococcus furiosus DSM 3638 (P. fur) are two model hyperthermophilic archaea. However, their annotations in public databases are unsatisfactory. In this article,
the two genomes were re-annotated according to the following steps. (i) All “hypothetical genes” in the original annotation
were re-identified based on the Z-curve method, and some of them were recognized as non-coding open reading frames (ORFs).
Evidence showed that the recognized non-coding ORFs were highly unlikely to encode proteins. (ii) The translation initiation
sites (TISs) of all the annotated genes were re-located, and more than 10% of the TISs were shifted to 5′-upstream or 3′-downstream
regions. (iii) The functions of the refined “hypothetical genes” were predicted using sequence alignment tools, more than
200 originally annotated “hypothetical genes” in either of the two hyperthermophiles were assigned functions. A large number
of these functions have reference support or experimentally characterized homologues. All the refined information will serve
as a valuable resource for research on P. aby and P. fur, which may be helpful in the exploration of thermal adaptation mechanisms. The complete re-annotation files of P. aby and P. fur are available at . |
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