The Pristionchus pacificus genome provides a unique perspective on nematode lifestyle and parasitism

被引：257

作者：

Dieterich, Christoph ^{[2
]}

Clifton, Sandra W. ^{[1
]}

Schuster, Lisa N. ^{[2
]}

Chinwalla, Asif ^{[1
]}

Delehaunty, Kimberly ^{[1
]}

Dinkelacker, Iris ^{[2
]}

Fulton, Lucinda ^{[1
]}

Fulton, Robert ^{[1
]}

Godfrey, Jennifer ^{[1
]}

Minx, Pat ^{[1
]}

Mitreva, Makedonka ^{[1
]}

Roeseler, Waltraud ^{[2
]}

Tian, Huiyu ^{[2
]}

Witte, Hanh ^{[2
]}

Yang, Shiaw-Pyng ^{[1
]}

Wilson, Richard K. ^{[1
]}

Sommer, Ralf J. ^{[2
]}

机构：

[1] Washington Univ, Sch Med, Genome Sequencing Ctr, St Louis, MO 63108 USA

[2] Max Planck Inst Dev Biol, D-72076 Tubingen, Germany

来源：

NATURE GENETICS | 2008年 / 40卷 / 10期

关键词：

D O I：

10.1038/ng.227

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

Here we present a draft genome sequence of the nematode Pristionchus pacificus, a species that is associated with beetles and is used as a model system in evolutionary biology. With 169 Mb and 23,500 predicted protein-coding genes, the P. pacificus genome is larger than those of Caenorhabditis elegans and the human parasite Brugia malayi. Compared to C. elegans, the P. pacificus genome has more genes encoding cytochrome P450 enzymes, glucosyltransferases, sulfotransferases and ABC transporters, many of which were experimentally validated. The P. pacificus genome contains genes encoding cellulase and diapausin, and cellulase activity is found in P. pacificus secretions, indicating that cellulases can be found in nematodes beyond plant parasites. The relatively higher number of detoxification and degradation enzymes in P. pacificus is consistent with its necromenic lifestyle and might represent a preadaptation for parasitism. Thus, comparative genomics analysis of three ecologically distinct nematodes offers a unique opportunity to investigate the association between genome structure and lifestyle.

引用

页码：1193 / 1198

页数：6

共 37 条

[1] Automatic clustering of orthologs and inparalogs shared by multiple proteomes [J].

Alexeyenko, Andrey ;

Tamas, Ivica ;

Liu, Gang ;

Sonnhammer, Erik L. L. .

BIOINFORMATICS, 2006, 22 (14) :E9-E15

[2] JIGSAW, GeneZilla, and GlimmerHMM: puzzling out the features of human genes in the ENCODE regions [J].

Allen, Jonathan E. ;

Majoros, William H. ;

Pertea, Mihaela ;

Salzberg, Steven L. .

GENOME BIOLOGY, 2006, 7 (Suppl 1)

[3] Automated de novo identification of repeat sequence families in sequenced genomes [J].

Bao, ZR ;

Eddy, SR .

GENOME RESEARCH, 2002, 12 (08) :1269-1276

[4] Symbiont genes in host genomes: Fragments with a future? [J].

Blaxter, Mark .

CELL HOST & MICROBE, 2007, 2 (04) :211-213

[5] A molecular evolutionary framework for the phylum Nematoda [J].

Blaxter, ML ;

De Ley, P ;

Garey, JR ;

Liu, LX ;

Scheldeman, P ;

Vierstraete, A ;

Vanfleteren, JR ;

Mackey, LY ;

Dorris, M ;

Frisse, LM ;

Vida, JT ;

Thomas, WK .

NATURE, 1998, 392 (6671) :71-75

[6] Genome sequence of the nematode C-elegans:: A platform for investigating biology [J].

不详 .

SCIENCE, 1998, 282 (5396) :2012-2018

[7] An efficient algorithm for large-scale detection of protein families [J].

Enright, AJ ;

Van Dongen, S ;

Ouzounis, CA .

NUCLEIC ACIDS RESEARCH, 2002, 30 (07) :1575-1584

[8] The Pfam protein families database [J].

Finn, Robert D. ;

Tate, John ;

Mistry, Jaina ;

Coggill, Penny C. ;

Sammut, Stephen John ;

Hotz, Hans-Rudolf ;

Ceric, Goran ;

Forslund, Kristoffer ;

Eddy, Sean R. ;

Sonnhammer, Erik L. L. ;

Bateman, Alex .

NUCLEIC ACIDS RESEARCH, 2008, 36 :D281-D288

[9]

Ghedin E, 2007, SCIENCE, V317, P1756, DOI 10.1126/science.1145406

[10] The nematode Pristionchus pacificus (Nematoda: Diplogastridae) is associated with the oriental beetle Exomala orientalis (Coleoptera: Scarabaeidae) in Japan [J].

Herrmann, Matthias ;

Mayer, Werner E. ;

Hong, Ray L. ;

Kienle, Simone ;

Minasaki, Ryuji ;

Sommer, Ralf J. .

ZOOLOGICAL SCIENCE, 2007, 24 (09) :883-889

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