Sangwan Naseer, Lambert Carey, Sharma Anukriti, Gupta Vipin, Khurana Paramjit, Khurana Jitendra P, Sockett R Elizabeth, Gilbert Jack A, Lal Rup
Department of Zoology, University of Delhi, Delhi, 110007, India.
Biosciences Division (BIO), Argonne National Laboratory, 9700 South Cass Avenue, Argonne, IL, 60439, USA.
Environ Microbiol Rep. 2015 Dec;7(6):812-23. doi: 10.1111/1758-2229.12297. Epub 2015 Jul 1.
Bdellovibrio bacteriovorus are small Deltaproteobacteria that invade, kill and assimilate their prey. Metagenomic assembly analysis of the microbial mats of an arsenic rich, hot spring was performed to describe the genotypes of the predator Bdellovibrio and the ecogenetically adapted taxa Enterobacter. The microbial mats were enriched with Bdellovibrio (1.3%) and several Gram-negative bacteria including Bordetella (16%), Enterobacter (6.8%), Burkholderia (4.8%), Acinetobacter (2.3%) and Yersinia (1%). A high-quality (47 contigs, 25X coverage; 3.5 Mbp) draft genome of Bdellovibrio (strain ArHS; Arsenic Hot Spring) was reassembled, which lacked the marker gene Bd0108 associated with the usual method of prey interaction and invasion for this genus, while maintaining genes coding for the hydrolytic enzymes necessary for prey assimilation. By filtering microbial mat samples (< 0.45 μm) to enrich for small predatory cell sizes, we observed Bdellovibrio-like cells attached side-on to E. coli through electron microscopy. Furthermore, a draft pan-genome of the dominant potential host taxon, Enterobacter cloacae ArHS (4.8 Mb), along with three of its viral genotypes (n = 3; 42 kb, 49 kb and 50 kb), was assembled. These data were further used to analyse the population level evolutionary dynamics (taxonomical and functional) of reconstructed genotypes.
食菌蛭弧菌是一类小型的δ-变形菌，它们会侵入、杀死并同化猎物。对富含砷的温泉微生物席进行了宏基因组组装分析，以描述捕食者食菌蛭弧菌和生态适应性类群阴沟肠杆菌的基因型。这些微生物席富含食菌蛭弧菌（1.3%）和几种革兰氏阴性菌，包括博德特氏菌（16%）、阴沟肠杆菌（6.8%）、伯克霍尔德氏菌（4.8%）、不动杆菌（2.3%）和耶尔森氏菌（1%）。重新组装了食菌蛭弧菌（菌株ArHS；砷温泉）的高质量（47个重叠群，25倍覆盖度；350万碱基对）基因组草图，该草图缺少与该属通常的猎物相互作用和入侵方式相关的标记基因Bd0108，同时保留了编码猎物同化所需水解酶的基因。通过过滤微生物席样品（<0.45μm）以富集小的捕食细胞大小，我们通过电子显微镜观察到类似食菌蛭弧菌的细胞以侧面附着于大肠杆菌。此外，组装了优势潜在宿主类群阴沟肠杆菌ArHS（480万碱基对）的泛基因组草图，以及其三种病毒基因型（n = 3；42千碱基对、49千碱基对和50千碱基对）。这些数据进一步用于分析重建基因型的群体水平进化动态（分类学和功能）。
