tornata as well as the widely grown perennial forage legume www.selleckchem.com/products/Oligomycin-A.html M. sativa. In addition, WSM1022 is also a highly effective microsymbiont for the model legume M. truncatula A17. Table 2 Nodulation and N2 fixation properties of E. meliloti WSM1022 on selected Medicago spp. Data compiled from [7,11]? Genome sequencing and annotation Genome project history This organism was selected for sequencing on the basis of its environmental and agricultural relevance to issues in global carbon cycling, alternative energy production, and biogeochemical importance, and is part of the Community Sequencing Program at the U.S. Department of Energy, Joint Genome Institute (JGI) for projects of relevance to agency missions. The genome project is deposited in the Genomes OnLine Database [28] and an improved-high-quality-draft genome sequence in IMG.

Sequencing, finishing and annotation were performed by the JGI. A summary of the project information is shown in Table 3. Table 3 Genome sequencing project information for E. meliloti WSM1022. Growth conditions and DNA isolation E. meliloti WSM1022 was cultured to mid logarithmic phase in 60 ml of TY rich medium [30] on a gyratory shaker at 28��C. DNA was isolated from the cells using a CTAB (Cetyl trimethyl ammonium bromide) bacterial genomic DNA isolation method [31]. Genome sequencing and assembly The genome of Ensifer meliloti WSM1022 was sequenced at the Joint Genome Institute (JGI) using Illumina technology [32]. An Illumina standard shotgun library was constructed and sequenced using the Illumina HiSeq 2000 platform which generated 12,082,430 reads totaling 1812.

4 Mbp. All general aspects of library construction and sequencing performed at the JGI can be found at the JGI website [31]. All raw Illumina sequence data was passed through DUK, a filtering program developed at JGI, which removes known Illumina sequencing and library preparation artifacts (Mingkun, L., Copeland, A. and Han, J., unpublished). The following steps were then performed for assembly: (1) filtered Illumina reads were assembled using Velvet [33] (version 1.1.04), (2) 1�C3 kb simulated paired end reads were created from Velvet contigs using wgsim (https://github.com/lh3/wgsim), (3) Illumina reads were assembled with simulated read pairs using Allpaths�CLG [34] (version r42328).

Parameters for assembly steps were: 1) Velvet (velveth: 63 �CshortPaired and velvetg: �Cveryclean yes �CexportFiltered yes �Cmincontiglgth 500 �Cscaffolding no�Ccovcutoff 10) 2) wgsim (�Ce 0 �C1 100 �C2 100 �Cr 0 �CR 0 �CX 0) 3) Allpaths�CLG (PrepareAllpathsInputs:PHRED64=1 PLOIDY=1 FRAGCOVERAGE=125 JUMPCOVERAGE=25 LONGJUMPCOV=50, RunAllpath-sLG: THREADS=8 RUN=stdshredpairs Batimastat TARGETS=standard VAPIWARNONLY=True OVERWRITE=True). The final draft assembly contained 125 contigs in 121 scaffolds. The total size of the genome is 6.6 Mb and the final assembly is based on 1,812.4 Mbp of Illumina data, which provides an average 275�� coverage of the genome.