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  • amplicon
  • In these cases, the shotgun metagenomic results were taken as a representation of the 'true' community, and the 16S rRNA gene amplicon libraries fed into PICRUSt to attempt to predict those data. (wikipedia.org)
  • polymerase
  • Thirty-eight clones containing 16S rRNA genes were identified in a screen of 3.2 x 10(4) recombinant phage, and portions of the rRNA gene were amplified by polymerase chain reaction and sequenced. (asm.org)
  • Each rRNA gene can be transcribed within the nucleolus by RNA polymerase I to produce a primary transcript that is processed to form the 18S, 5.8S, and 25-27S rRNAs (the size depends on species). (pnas.org)
  • To form ribosomes, these RNAs are assembled with 5S rRNA transcribed by RNA polymerase III and ≈80 proteins whose mRNAs are transcribed by RNA polymerase II. (pnas.org)
  • taxonomic
  • Most of operational taxonomic units (OTUs) showed low similarity to the identified methanogens in both the mcrA and the 16S rRNA clone libraries. (hindawi.com)
  • When applying PICRUSt to a 16S rRNA gene library, PICRUSt matches reference operational taxonomic units against the tables, and retrieves a predicted 16S rRNA copy number and gene copy number for each gene family. (wikipedia.org)
  • Surprisingly
  • Surprisingly, rRNA genes silent in vegetative tissues of Brassica napus are expressed in flowers, suggesting that the genetic mechanisms responsible for nucleolar dominance are developmentally regulated in each generation after polyploidization. (pnas.org)
  • bacteria
  • Fecal 16S rRNA copy number of selected bacteria was studied using qPCR in 47. (ebscohost.com)
  • I want to build a fasta file with only the 16s rRNA gene from the bacteria associated these ID and gi#. (biostars.org)
  • Notably, while this functionality is typically used for prediction of gene copy numbers in bacteria, it could, in principle, be used for prediction of any other continuous trait given trait data for diverse organisms and a reference phylogeny. (wikipedia.org)
  • promoters
  • We show that rRNA gene promoters inherited from only one progenitor are active in vegetative tissues and that dominance is independent of maternal effect and ploidy. (pnas.org)
  • phylogenetic
  • The phylogenetic analysis of nitrogenous and chlorophyll iron proteins suggests that an ancestral iron protein duplicated and diverged into nifH and anfH genes. (wikipedia.org)
  • Additional tests examined sensitivity to errors in phylogenetic inference, lack of genomic data, and the accuracy of the confidence intervals on gene content. (wikipedia.org)
  • transcripts
  • rRNA transcripts of only one progenitor were detected in vegetative tissues of each polyploid. (pnas.org)
  • Furthermore
  • Furthermore, in Brassica napus , rRNA genes silenced in vegetative tissues were found to be expressed in all floral organs, including sepals and petals, arguing against the hypothesis that passage through meiosis is needed to reactivate suppressed genes. (pnas.org)
  • cellular
  • Ethidium bromide (EtBr)-stained cellular rRNA and CHD4 levels (WB) are shown below. (pnas.org)
  • metagenome
  • This gives a prediction for the contribution of each OTU to the overall gene content of the sample (the metagenome). (wikipedia.org)
  • Finally, these individual contributions are summed together to produce an estimate of the genes present in the metagenome. (wikipedia.org)
  • species
  • rRNA transcription start sites were mapped in three diploids and in three allotetraploids (amphidiploids) and one allohexaploid species derived from these diploid progenitors. (pnas.org)
  • Although the MALDI-TOF technique appeared to be advantageous as less time-consuming in comparison with 16S rRNA-based method, the discrepancies at species level indicated the limited database of MALDI Biotyper and species complexity in the genera. (springer.com)
  • Methods
  • Methods frequently include using microsatellites to determine gene flow and hybridization between populations. (wikipedia.org)
  • stability
  • To explain these results, we investigated the inheritance and stability of rRNA gene copy number using the variety of genetic resources available in A. thaliana - F2 crosses, recombinant inbred lines, the multiparent advanced-generation inter-cross population, and mutation accumulation lines. (g3journal.org)
  • copy
  • rRNA gene copy number is thus an interesting example of "missing heritability"-a trait that is heritable in pedigrees, but not in the general population. (g3journal.org)
  • These gene family copy numbers are treated as continuous traits, and an evolutionary model constructed under the assumption of Brownian Motion. (wikipedia.org)
  • A similar step predicts the copy number of 16S rRNA genes. (wikipedia.org)
  • high
  • The presence and high concentration of rRNA genes in air suggests that atmospheric transport, which can lead to secondary infection, may be more important than currently estimated. (frontiersin.org)
  • level
  • Northern blot (NB) shows the level of pre-rRNA in NIH 3T3 cells infected with retroviruses encoding CHD4-specific shRNA (shCHD4) or control shRNA (shCtrl). (pnas.org)
  • winter
  • Antarctic Peninsula Bacterioplankton 16S rRNA gene surveys and metagenomes from Winter 2002 and Summer 2006. (gbif.org)
  • nearly
  • However, cytogenetic evidence for rRNA gene regulation on a larger scale has accumulated for nearly 70 years on the basis of studies of nucleolar dominance. (pnas.org)
  • activity
  • The ribosomal peptidyl transferase activity resides in domain V of this rRNA, and this domain is the most common binding site for antibiotics that inhibit translation. (wikipedia.org)