Complete genome of Serratia sp. strain FGI 94, a strain associated with leaf-cutter ant fungus gardens

Genome Announcements

Volumn 1, Issue 2, 2013, Pages

  Aylward, Frank O ^a   Tremmel, Daniel M ^a   Starrett, Gabriel J ^a   Bruce, David C ^b,c   Chain, Patrick ^b,c   Chen, Amy ^c   Davenport, Karen W ^b,c   Detter, Chris ^b,c   Han, Cliff S ^b,c   Han, James ^c   Huntemann, Marcel ^c   Ivanova, Natalia N ^c   Kyrpides, Nikos C ^c   Markowitz, Victor ^c   Mavrommatis, Kostas ^c   Nolan, Matt ^c   Pagani, Ioanna ^c   Pati, Amrita ^c   Pitluck, Sam ^c   Teshima, Hazuki ^b,c   Deshpande, Shweta ^c   Goodwin, Lynne ^b,c   Woyke, Tanja ^c   Currie, Cameron R ^a   more..

^a UNIVERSITY OF WISCONSIN MADISON   (United States)

^b LOS ALAMOS NATIONAL LABORATORY   (United States)

^c DOE JOINT GENOME INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 84995934695     PISSN: None     EISSN: 21698287     Source Type: Journal    
DOI: 10.1128/genomeA.00239-12     Document Type: Article

References (20)

1. Grimont F, Grimont PAD. 2006. The genus Serratia. In Dworkin M, Falkow S, Rosenberg E, Schleifer KH, Stackebrandt E (ed), The prokaryotes: handbook on the biology of bacteria, vol 3. Springer Verlag Science, New York, NY.
2. Mahlen SD. 2011. Serratia infections: from military experiments to current practice. Clin. Microbiol. Rev. 24:755-791.
3. Burke GR, Moran NA. 2011. Massive genomic decay in Serratia symbiotica, a recently evolved symbiont of aphids. Genome Biol. Evol. 3:195-208.
4. Vallet-Gely I, Lemaitre B, Boccard F. 2008. Bacterial strategies to overcome insect defences. Nat. Rev. Microbiol. 6:302-313.
5. Hölldobler B, Wilson EO. 2010. The leafcutter ants: civilization by instinct. W. W. Norton and Company, Inc., New York, NY.
6. Weber NA. 1966. Fungus-growing ants. Science 153:587-604.
7. Aylward FO, Burnum KE, Scott JJ, Suen G, Tringe SG, Adams SM, Barry KW, Nicora CD, Piehowski PD, Purvine SO, Starrett GJ, Goodwin LA, Smith RD, Lipton MS, Currie CR. 2012. Metagenomic and metaproteomic insights into bacterial communities in leaf-cutter ant fungus gardens. ISME J. 6:1688-1701.
8. Suen G, Scott JJ, Aylward FO, Adams SM, Tringe SG, Pinto-Tomás AA, Foster CE, Pauly M, Weimer PJ, Barry KW, Goodwin LA, Bouffard P, Li L, Osterberger J, Harkins TT, Slater SC, Donohue TJ, Currie CR. 2010. An insect herbivore microbiome with high plant biomass-degrading capacity. PLoS Genet. 6:e1001129.
9. Aylward FO, Currie CR, Suen G. 2012. The evolutionary innovation of nutritional symbioses in leaf-cutter ants. Insects 3:41-61.
10. Pinto-Tomás AA, Anderson MA, Suen G, Stevenson DM, Chu FS, Cleland WW, Weimer PJ, Currie CR. 2009. Symbiotic nitrogen fixation in the fungus gardens of leaf-cutter ants. Science 326:1120-1123.
11. Bennett S. 2004. Solexa Ltd. Pharmacogenomics 5:433-438.
12. Peng Z, Zhao Z, Nath N, Froula JL, Clum A, Zhang T, Cheng JF, Copeland AC, Pennacchio LA, Chen F. 2012. Generation of long insert pairs using a Cre-LoxP inverse PCR approach. PLoS One 7:e29437.
13. Zerbino DR, Birney E. 2008. Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res. 18:821-829.
14. Butler J, MacCallum I, Kleber M, Shlyakhter IA, Belmonte MK, Lander ES, Nusbaum C, Jaffe DB. 2008. ALLPATHS: de novo assembly of wholegenome shotgun microreads. Genome Res. 18:810-820.
15. Ewing B, Green P. 1998. Base-calling of automated sequencer traces using Phred. II. Error probabilities. Genome Res. 8:186-194.
16. Ewing B, Hillier L, Wendl MC, Green P. 1998. Base-calling of automated sequencer traces using Phred. I. Accuracy assessment. Genome Res. 8:175-185.
17. Gordon D, Abajian C, Green P. 1998. Consed: a graphical tool for sequence finishing. Genome Res. 8:195-202.
18. Zhang X, Davenport KW, Gu W, Daligault HE, Munk AC, Tashima H, Reitenga K, Green LD, Han CS. 2012. Improving genome assemblies by sequencing PCR products with PacBio. BioTechniques 53:61-62.
19. Markowitz VM, Mavromatis K, Ivanova NN, Chen IM, Chu K, Kyrpides NC. 2009. IMG ER: a system for microbial genome annotation expert review and curation. Bioinformatics 25:2271-2278.
20. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. 1990. Basic local alignment search tool. J. Mol. Biol. 215:403-410.