Comparative genomics of Fructobacillus spp. and Leuconostoc spp. reveals niche-specific evolution of Fructobacillus spp.
Comparative genomics of Fructobacillus spp. and Leuconostoc spp. reveals niche-specific evolution of Fructobacillus spp.
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DOI：
10.1186/s12864-015-2339-x
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发表时间：
2015-12-29
期刊：
影响因子：
4.4
通讯作者：
Arita M
中科院分区：
文献类型：
--
作者：
Endo A;Tanizawa Y;Tanaka N;Maeno S;Kumar H;Shiwa Y;Okada S;Yoshikawa H;Dicks L;Nakagawa J;Arita M
果树属在富含果糖的小生境中属于明串珠菌科。它们最初被分类为明串珠菌属，但后来根据它们的系统发育位置、形态和特定的生化特征被归为一个新属--果属。这种独特的特性，即嗜果糖特性，在乳酸菌群中未见报道，表明乳酸菌在基因组水平上具有独特的进化特征。在这里，我们研究了四个果树基因组序列草图。并将它们的代谢特性与明串珠菌属的代谢特性进行比较。果树物种在其小基因组中具有显著较少的蛋白质编码序列。碳水化合物转运和代谢的基因数量明显较少。其他代谢途径，包括TCA循环，泛醌和其他萜类-醌生物合成和磷酸转移酶系统，被表征为两个属之间的区别途径。双功能乙醛/乙醇脱氢酶的adhE基因和丙酮酸脱氢酶复合物的亚基基因在果葡菌中不存在。两属还表现出不同水平的GC含量，这主要是由于第三密码子位置的GC含量不同。本文报道了果树的基因组特征。表明了为适应特定生态位而发生的还原进化。本文的在线版本（doi：10.1186/s12864-015-2339-x）包含补充材料，可供授权用户使用。
Fructobacillus spp. in fructose-rich niches belong to the family Leuconostocaceae. They were originally classified as Leuconostoc spp., but were later grouped into a novel genus, Fructobacillus, based on their phylogenetic position, morphology and specific biochemical characteristics. The unique characters, so called fructophilic characteristics, had not been reported in the group of lactic acid bacteria, suggesting unique evolution at the genome level. Here we studied four draft genome sequences of Fructobacillus spp. and compared their metabolic properties against those of Leuconostoc spp. Fructobacillus species possess significantly less protein coding sequences in their small genomes. The number of genes was significantly smaller in carbohydrate transport and metabolism. Several other metabolic pathways, including TCA cycle, ubiquinone and other terpenoid-quinone biosynthesis and phosphotransferase systems, were characterized as discriminative pathways between the two genera. The adhE gene for bifunctional acetaldehyde/alcohol dehydrogenase, and genes for subunits of the pyruvate dehydrogenase complex were absent in Fructobacillus spp. The two genera also show different levels of GC contents, which are mainly due to the different GC contents at the third codon position. The present genome characteristics in Fructobacillus spp. suggest reductive evolution that took place to adapt to specific niches. The online version of this article (doi:10.1186/s12864-015-2339-x) contains supplementary material, which is available to authorized users.