title: Growth temperatures of archaeal communities can be estimated from the guanine-plus-cytosine contents of 16S rRNA gene fragments.
abstract: Prokaryote growth temperatures in environmental samples are difficult to measure because it is hard to culture viable prokaryotes in natural environments. We comprehensively surveyed growth temperatures and 16S rRNA sequences of prokaryotes to estimate their growth temperatures based on guanine-plus-cytosine contents (P(GC)) of their 16S rRNA sequences. We focused on archaea because of the wide range of growth temperatures within this group. Their minimum (Tmin), optimum (Topt) and maximum (Tmax) growth temperatures correlated strongly with PGC of their 16S rRNA genes. Linear regression equations were established to approximate Tmin, Topt and Tmax from P(GC). We also established a linear regression equation for calculating P(GC) of 16S rRNA genes based on the melting temperatures (Tm) of PCR fragments, without using a clone library or sequencing. Environmental samples were obtained from a wide variety of microbial natural habitats. Tm of archaeal 16S rRNA genes amplified by real-time PCR were determined by melting curve analysis. Based on those values, P(GC) of 16S rRNA genes and mean Tmin, Topt and Tmax were calculated using the linear regression equations. These temperatures correlated strongly with the in situ temperatures. Tmax agreed particularly well with these temperatures, suggesting many archaea live at their maximum growth temperatures.
authors.affiliation: Department of Geosciences, Faculty of Science, Shizuoka University, Suruga-ku, Shizuoka, Japan. shkimur@ipc.shizuoka.ac.jp
authors.forename: Hiroyuki
authors.initials: H
authors.lastname: Kimura
authors.forename: Kousuke
authors.initials: K
authors.lastname: Mori
authors.forename: Toshiro
authors.initials: T
authors.lastname: Yamanaka
authors.forename: Jun-Ichiro
authors.initials: J
authors.lastname: Ishibashi
mesh_terms: D001105:Archaea / Q000145:classification / Q000235:genetics* / Q000254:growth & development; D001482:Base Composition; D019641:DNA, Archaeal / Q000145:classification / Q000235:genetics*; D017753:Ecosystem; D020459:Genes, rRNA; D059013:Microbial Consortia / Q000235:genetics*; D010802:Phylogeny; D012336:RNA, Ribosomal, 16S / Q000145:classification / Q000235:genetics*; D060888:Real-Time Polymerase Chain Reaction; D012044:Regression Analysis; D017422:Sequence Analysis, DNA; D013696:Temperature
chemical_list: D019641:DNA, Archaeal; D012336:RNA, Ribosomal, 16S