Novel insights into the diversity of catabolic metabolism from ten haloarchaeal genomes.
Novel insights into the diversity of catabolic metabolism from ten haloarchaeal genomes.
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DOI：
10.1371/journal.pone.0020237
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发表时间：
2011
期刊：
影响因子：
3.7
通讯作者：
Kyrpides N
中科院分区：
文献类型：
--
作者：
Anderson I;Scheuner C;Göker M;Mavromatis K;Hooper SD;Porat I;Klenk HP;Ivanova N;Kyrpides N
极端嗜盐古菌存在于世界各地的盐水环境中，具有重要的生物技术应用。现在已经有10个盐古菌的完整基因组，为比较分析提供了机会。我们在这里报告的比较分析五个新测序的盐古菌基因组与五个以前发表的。基于蛋白质序列的全基因组树为这十种生物之间的深层关系提供了强有力的支持。使用软聚类方法，我们确定了887蛋白质簇存在于所有嗜盐菌。在这些核心集群中，有112个在任何其他古菌中都没有发现，因此构成了盐古菌的特征。嗜盐菌中有4种是从水中分离的，4种是从土壤或沉积物中分离的。虽然有几个特定的栖息地集群，土壤/沉积物嗜盐菌往往有更大的能力，多糖降解，铁载体合成，和细胞壁修饰。犹他嗜盐杆菌和土耳其嗜盐菌各自编码超过40种糖基水解酶，并且可能能够分解天然存在的复杂碳水化合物。H. Utahensis专门用于碳水化合物上的生长，并且具有很少的氨基酸降解途径。它使用非氧化戊糖磷酸途径而不是氧化途径，使其在戊糖代谢中更具灵活性。这些新的基因组扩展了我们对盐古菌分解代谢途径的理解，为进一步的实验分析提供了基础，特别是在碳水化合物代谢方面。用于生物燃料生产的嗜盐糖基水解酶更可能在从土壤或沉积物中分离的嗜盐菌中发现。
The extremely halophilic archaea are present worldwide in saline environments and have important biotechnological applications. Ten complete genomes of haloarchaea are now available, providing an opportunity for comparative analysis. We report here the comparative analysis of five newly sequenced haloarchaeal genomes with five previously published ones. Whole genome trees based on protein sequences provide strong support for deep relationships between the ten organisms. Using a soft clustering approach, we identified 887 protein clusters present in all halophiles. Of these core clusters, 112 are not found in any other archaea and therefore constitute the haloarchaeal signature. Four of the halophiles were isolated from water, and four were isolated from soil or sediment. Although there are few habitat-specific clusters, the soil/sediment halophiles tend to have greater capacity for polysaccharide degradation, siderophore synthesis, and cell wall modification. Halorhabdus utahensis and Haloterrigena turkmenica encode over forty glycosyl hydrolases each, and may be capable of breaking down naturally occurring complex carbohydrates. H. utahensis is specialized for growth on carbohydrates and has few amino acid degradation pathways. It uses the non-oxidative pentose phosphate pathway instead of the oxidative pathway, giving it more flexibility in the metabolism of pentoses. These new genomes expand our understanding of haloarchaeal catabolic pathways, providing a basis for further experimental analysis, especially with regard to carbohydrate metabolism. Halophilic glycosyl hydrolases for use in biofuel production are more likely to be found in halophiles isolated from soil or sediment.
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影响因子：
10.7
作者：
Castresana, J
通讯作者：
Castresana, J
影响因子：
3.8
作者：
Dadi, Anantharam P.;Varanasi, Sasidhar;Schall, Constance A.
通讯作者：
Schall, Constance A.
影响因子：
5.6
作者：
Brewer, Mark L.
通讯作者：
Brewer, Mark L.
DOI：
10.1111/j.1095-8312.2007.00864.x
发表时间：
2007-12-01
影响因子：
1.9
作者：
Hess, Pablo N.;De Moraes Russo, Claudia A.
通讯作者：
De Moraes Russo, Claudia A.
影响因子：
2.9
作者：
Bardavid, Rahel Elevi;Oren, Aharon
通讯作者：
Oren, Aharon