Sequencing-Related Papers of Note, November 2007
Author(s) Title Citation
Begun DJ, Holloway AK, Stevens K, Hillier LW, Poh YP, et al.

Population genomics: whole-genome analysis of polymorphism and divergence in Drosophila simulans.

PLoS Biol. 2007 Nov 6;5(11):e310.
Callanan M, Kaleta P, O'Callaghan J, O'Sullivan O, Jordan K, McAuliffe O, Sangrador-Vegas A, Slattery L, Fitzgerald GF, Beresford T, Ross RP. Genome sequence of Lactobacillus helveticus: an organism distinguished by selective gene loss and IS element expansion. J Bacteriol. 2007 Nov 9 [Epub ahead of print]
Chen J, Agrawal V, Rattray M, West MA, St Clair DA, Michelmore RW, Coughlan SJ, Meyers BC. A comparison of microarray and MPSS technology platforms for expression analysis of Arabidopsis. BMC Genomics. 2007 Nov 12;8(1):414 [Epub ahead of print]
Drosophila 12 Genomes Consortium, Clark AG, Eisen MB, Smith DR, Bergman CM, et al. Evolution of genes and genomes on the Drosophila phylogeny. Nature. 2007 Nov 8;450(7167):203-18.
Ellison DW, Clark TR, Sturdevant DE, Virtaneva K, Porcella SF, Hackstadt T. Genomic comparison of virulent Rickettsia rickettsii Sheila Smith and avirulent Rickettsia rickettsii Iowa. Infect Immun.2007 Nov 19 [Epub ahead of print]
Eveland AL, McCarty DR, Koch KE. Transcript profiling by 3' UTR sequencing resolves expression of gene families. Plant Physiol.2007 Nov 16 [Epub ahead of print]
Hane JK, Lowe RG, Solomon PS, Tan KC, Schoch CL, Spatafora JW, Crous PW, Kodira C, Birren BW, Galagan JE, Torriani SF, McDonald BA, Oliver RP. Dothideomycete plant interactions illuminated by genome sequencing and EST analysis of the wheat pathogen Stagonospora nodorum. Plant Cell. 2007 Nov 16 [Epub ahead of print]
Highlander SK, Hulten KG, Qin X, Jiang H, Yerrapragada S, et al. Subtle genetic changes enhance virulence of methicillin resistant and sensitive Staphylococcus aureus. BMC Microbiol. 2007 Nov 6;7(1):99 [Epub ahead of print]
Johnson PL, Slatkin M. Accounting for bias from sequencing error in population genetic estimates. Mol Biol Evol. 2007 Nov 2 [Epub ahead of print]
Korshunova Y, Maloney RK, Lakey N, Citek RW, Bacher B, Budiman A, Ordway JM, McCombie WR, Leon J, Jeddeloh JA, McPherson JD. Massively parallel bisulphite pyrosequencing reveals the molecular complexity of breast cancer-associated cytosine-methylation patterns obtained from tissue and serum DNA. Genome Res. 2007 Nov 21 [Epub ahead of print]
Lijavetzky D, Cabezas JA, Ibanez A, Rodriguez V, Martinez-Zapater JM. High throughput SNP discovery and genotyping in grapevine (Vitis vinifera L.) by combining a re-sequencing approach and SNPlex technology. BMC Genomics. 2007 Nov 19;8(1):424 [Epub ahead of print]
Macas J, Neumann P, Navratilova A. Repetitive DNA in the pea (Pisum sativum L.) genome: comprehensive characterization using 454 sequencing and comparison to soybean and Medicago truncatula. BMC Genomics. 2007 Nov 21;8(1):427 [Epub ahead of print]
Pettersson E, Zajac P, Ståhl PL, Jacobsson JA, Fredriksson R, Marcus C, Schiöth HB, Lundeberg J, Ahmadian A. Allelotyping by massively parallel pyrosequencing of SNP-carrying trinucleotide threads. Hum Mutat. 2007 Nov 9 [Epub ahead of print]
Pontius JU, Mullikin JC, Smith DR; Agencourt Sequencing Team, Lindblad-Toh K, Gnerre S, et al. Initial sequence and comparative analysis of the cat genome. Genome Res. 2007 Nov;17(11):1675-89.
Saenz HL, Engel P, Stoeckli MC, Lanz C, Raddatz G, et al. Genomic analysis of Bartonella identifies type IV secretion systems as host adaptability factors. Nat Genet. 2007 Dec;39(12):1469-76. Epub 2007 Nov 25.
Sram J, Sommer SS, Liu Q. Microarray-based DNA resequencing using 3' blocked primers. Anal Biochem.2007 Nov 4 [Epub ahead of print]
Sundquist A, Bigdeli S, Jalili R, Druzin ML, Waller S, Pullen KM, El-Sayed YY, Taslimi MM, Batzoglou S, Ronaghi M. Bacterial flora typing with deep, targeted, chip-based pyrosequencing. BMC Microbiol. 2007 Nov 30;7(1):108 [Epub ahead of print]
Thomson NR, Holden MT, Carder C, Lennard N, Lockey SJ, et al. Chlamydia trachomatis: Genome sequence analysis of lymphogranuloma venereum isolates. Genome Res. 2007 Nov 21 [Epub ahead of print]
Torres TT, Metta M, Ottenwälder B, Schlötterer C. Gene expression profiling by massively parallel sequencing. Genome Res. 2007 Nov 21 [Epub ahead of print]
Warnecke F, Luginbühl P, Ivanova N, Ghassemian M, Richardson TH, et al. Metagenomic and functional analysis of hindgut microbiota of a wood-feeding higher termite. Nature. 2007 Nov 22;450(7169):560-5.
Wegley L, Edwards R, Rodriguez-Brito B, Liu H, Rohwer F. Metagenomic analysis of the microbial community associated with the coral Porites astreoides. Environ Microbiol. 2007 Nov;9(11):2707-19.
Wu HC, Astier Y, Maglia G, Mikhailova E, Bayley H. Protein nanopores with covalently attached molecular adapters. J Am Chem Soc. 2007 Nov 30 [Epub ahead of print]
Xu J, Saunders CW, Hu P, Grant RA, Boekhout T, Kuramae EE, et al. Dandruff-associated Malassezia genomes reveal convergent and divergent virulence traits shared with plant and human fungal pathogens. Proc Natl Acad Sci U S A. 2007 Nov 20;104(47):18730-5. Epub 2007 Nov 13.