Register for GSC 9

Registration is open for GSC 9, the first GSC workshop to have an open registration. It will be hosted by the J. Craig Venter Institute, Rockville, MD, USA from 28-30 April 2010. Please note the early registration deadline is March 31st and registration closes on April 15th.

In the current issue (Published January 24 - February 28, 2010)

Foster et al., Complete genome sequence of Xylanimonas cellulosilytica type strain (XIL07T)
Mavromatis et al., Complete genome sequence of Desulfohalobium retbaense type strain (HR100T)
Ivanova et al., Complete genome sequence of Alicyclobacillus acidocaldarius type strain (104-IAT)
Nolan et al., Complete genome sequence of Sphaerobacter thermophilus type strain (S 6022T)
Spring et al, Complete genome sequence of Gordonia bronchialis type strain (3410T)
Pati et al, Complete genome sequence of Streptosporangium roseum type strain (NI 9100T)
Reeves et al, Complete genome sequence of Medicago microsymbiont Sinorhizobium medicae strain WSM419
Reeves et al, Complete genome sequence of Rhizobium leguminosarum bv. trifolii strain WSM2304
Gronow et al, Complete genome sequence of Veillonella parvula type strain (Te3T)
Glavina del Rio et al, Complete genome sequence of Chitinophaga pinensis type strain (UQM 2034T)
Ivanaova et al, Complete genome sequence of Haliangium ochraceum type strain (SMP-2T)

Standard Operating Procedure
Snippen and Ussery, Pan-genome family trees
Auch et al, Standard operating procedure for calculating genome-to-genome distances based on high-scoring segment pairs

Research Articles
Auch et al, Calculating genome-to-genome distances based on high-scoring sequence pairs

Previous issues
Volume 1 Number 3 (published November 22, 2009)
Short Genome Reports (GEBA)
Anderson et al., Complete genome sequence of Halorhabdus utahensis type strain (AX-2T)
Han et al., Complete genome sequence of Kangiella koreensis type strain (SW-125T)
Pukall et al., Complete genome sequence of Slackia heliotrinireducens type strain (RSH 1T)
Spring et al., Complete genome sequence of Desulfotomaculum acetoxidans type strain (5575T)
Chovatia et al., Complete genome sequence of Thermanaerovibrio acidaminovorans type strain (Su883T)
Pukall et al., Complete genome sequence of Jonesia denitrificans type strain (Prevot 55134T)
Tindall et al., Complete genome sequence of Halomicrobium mukohataei type strain (arg-2T)
Nolan et al., Complete genome sequence of Rhodothermus marinus type strain (R-10T)
Munk et al., Complete genome sequence of Stackebrandtia nassauensis type strain (LLR-40K-21T)
Nolan et al., Complete genome sequence of Streptobacillus moniliformis type strain (9901T)
Clum et al., Complete genome sequence of Pirellula staleyi type strain (ATCC 27377T)

Editorial/Commentary
Sterk, Standards and standard-compliance

Community Dialog
Field et al., Meeting Report: “Metagenomics, Metadata and Meta-analysis” (M3) Special Interest Group at ISMB 2009

Short Genome Reports (non-GEBA)
Anderson et al., Complete genome sequence of Staphylothermus marinus Stetter and Fiala 1986 type strain F1
Anderson et al., Complete genome sequence of Methanocorpusculum labreanum Zhao et al. 1989 type strain Z
Anderson et al., Complete genome sequence of Methanoculleus marisnigri (Romesser et al. 1981) Maestrojuan et al. 1990 type strain JR1

Short Genome Reports (GEBA)
Mavrommatis et al., Complete genome sequence of Cryptobacterium curtum type strain (12-3T)

Mavrommatis et al., Complete genome sequence of Capnocytophaga ochracea type strain (VPI 2845T)

Ivanova, et al., Complete genome sequence of Sanguibacter keddieii type strain  (ST-74T))

Copeland et al., Complete genome sequence of Catenulispora acidiphila type  strain (ID 139908T)

Ivanova., et al., Complete genome sequence of Leptotrichia buccalis type strain  C-1013-bT)

Lang et al., Complete genome sequence of Dyadobacter fermentans type strain  (NS114T)

Pati et al., Complete genome sequence of Saccharomonospora viridis type  strain (P101T)
Malfatti, et al., Complete genome sequence of Halogeometricum borinquense type strain (PR3T)
Labutti, et al., Complete genome sequence of Anaerococcus prevotii type strain (PC1T)
Saunders, et al., Complete genome sequence of Eggerthella lenta type strain (IPP VPI 0255T)
Copeland, et al., Complete genome sequence of Atopobium parvulum type strain (IPP 1246T)

Research Articles
Hallin et al. GeneWiz browser: An Interactive Tool for Visualizing Sequenced Chromosomes

Volume 1 Number 1 (published July 20, 2009)

Short Genome Reports (GEBA)
Lapidus et al., Complete genome sequence of Brachybacterium faecium type strain (Schefferle 6-10T)

Sims, et al., Complete genome sequence of Kytococcus sedentarius type strain  (strain 541T)

Land, et al., Complete genome sequence of Beutenbergia cavernae type strain  (HKI 0122T)

Copeland et al., Complete genome sequence of Desulfomicrobium baculatum type strain (X)

Clum et al., Complete genome sequence of Acidimicrobium ferrooxidans type  strain (ICPT)

Land et al., Complete genome sequence of Actinosynnema mirum type strain  (101T)

Ham et al., Complete genome sequence of Pedobacter heparinus type strain  (HIM 762-3T)

Standard Operating Procedures
Mavrommatis et al., The DOE-JGI Standard Operating Procedure for the  Annotation of Microbial Genomes

Meeting Reports
Field et al., Meeting Reports from the Genomic Standards Consortium (GSC)  Workshops 6 and 7

Nelson et al., Meeting Report for SIGS1: First Conference of the Standards in  Genomic Sciences eJournal

White papers Garrity, et al., Studies on Monitoring and Tracking Genetic Resources: An  Executive Summary

SIGS is an open-access, standards-supportive publication that seeks to rapidly disseminates concise genome and metagenome reports in compliance with MIGS/MIMS standards. SIGS also seeks to present detailed standard operating procedures, meeting reports, reviews and commentaries, data policies, white papers and other gray literature that is relevant to genome sciences, but absent from the scholarly literature.

Presentations/Posters

A project summary and recent poster of SIGS is also available on the Genomic Standards Consortium (GSC) website, and provides a more complete timeline and description of content being developed for the journal. SIGS is a community-based effort that involves archival snapshots that pursue consistency and uniformity for future and current cross-comparisons. Where MIGS/MIMS projects of the GSC have sought to develop interoperable approaches to ensure consistency in semantic and syntactic annotation of genomes and metagenomes, SIGS will apply and extend these standards to be published.

November 2009 - Third issue of SIGS publishes