Babalola Olubukola O, Kirby Bronwyn M, Le Roes-Hill Marilize, Cook Andrew E, Cary S Craig, Burton Stephanie G, Cowan Don A
Department of Biotechnology, Institute for Microbial Biotechnology and Metagenomics, University of the Western Cape, Private Bag, Bellville, Cape Town, South Africa.
Environ Microbiol. 2009 Mar;11(3):566-76. doi: 10.1111/j.1462-2920.2008.01809.x.
Despite the apparent severity of the environmental conditions in the McMurdo Dry Valleys, Eastern Antarctica, recent phylogenetic studies conducted on mineral soil samples have revealed the presence of a wide diversity of microorganisms, with actinobacteria representing one of the largest phylotypic groups. Previous metagenomic studies have shown that the majority of Antarctic actinobacterial populations are classified as 'uncultured'. In this study, we assessed the diversity of actinobacteria in Antarctic cold desert soils by complementing traditional culture-based techniques with a metagenomic study. Phylogenetic analysis of clones generated with actinobacterium- and streptomycete-specific PCR primers revealed that the majority of the phylotypes were most closely related to uncultured Pseudonocardia and Nocardioides species. Phylotypes most closely related to a number of rarer actinobacteria genera, including Geodermatophilus, Modestobacter and Sporichthya, were also identified. While complementary culture-dependent studies isolated a number of Nocardia and Pseudonocardia species, the majority of the cultured isolates (> 80%) were Streptomyces species--although phylotypes affiliated to the genus Streptomyces were detected at a low frequency in the metagenomic study. This study confirms that Antarctic Dry Valley desert soil harbours highly diverse actinobacterial communities and suggests that many of the phylotypes identified may represent novel, uncultured species.
尽管南极东部麦克默多干谷的环境条件看似恶劣,但最近对矿质土壤样本进行的系统发育研究表明,那里存在着种类繁多的微生物,其中放线菌是最大的系统发育类群之一。以往的宏基因组研究表明,大多数南极放线菌种群被归类为“未培养的”。在本研究中,我们通过宏基因组研究补充传统的基于培养的技术,评估了南极寒冷沙漠土壤中放线菌的多样性。用放线菌和链霉菌特异性PCR引物产生的克隆的系统发育分析表明,大多数系统发育型与未培养的假诺卡氏菌属和类诺卡氏菌属物种关系最为密切。还鉴定出了与一些较罕见的放线菌属关系最为密切的系统发育型,包括嗜皮菌属、适度杆菌属和孢栖菌属。虽然基于培养的补充研究分离出了一些诺卡氏菌属和假诺卡氏菌属物种,但大多数培养分离株(>80%)是链霉菌属物种——尽管在宏基因组研究中检测到属于链霉菌属的系统发育型的频率较低。这项研究证实,南极干谷沙漠土壤中存在高度多样的放线菌群落,并表明所鉴定的许多系统发育型可能代表新的未培养物种。