FN Archimer Export Format
PT J
TI Multivariate Cutoff Level Analysis (MultiCoLA) of large community data sets
BT 
AF GOBET, Angelique
   QUINCE, Christopher
   RAMETTE, Alban
AS 1:1,2;2:3;3:1;
FF 1:;2:;3:;
C1 Max Planck Inst Marine Microbiol, Microbial Habitat Grp, Bremen, Germany.
   Jacobs Univ Bremen GmbH, Bremen, Germany.
   Univ Glasgow, Dept Civil Engn, Glasgow G12 8QQ, Lanark, Scotland.
C2 INST MAX PLANCK, GERMANY
   UNIV BREMEN, GERMANY
   UNIV GLASGOW, UK
IF 7.836
TC 79
UR https://archimer.ifremer.fr/doc/00488/59949/63199.pdf
   https://archimer.ifremer.fr/doc/00488/59949/63200.pdf
   https://archimer.ifremer.fr/doc/00488/59949/63201.pdf
LA English
DT Article
AB High-throughput sequencing techniques are becoming attractive to molecular biologists and ecologists as they provide a time- and cost-effective way to explore diversity patterns in environmental samples at an unprecedented resolution. An issue common to many studies is the definition of what fractions of a data set should be considered as rare or dominant. Yet this question has neither been satisfactorily addressed, nor is the impact of such definition on data set structure and interpretation been fully evaluated. Here we propose a strategy, MultiCoLA (Multivariate Cutoff Level Analysis), to systematically assess the impact of various abundance or rarity cutoff levels on the resulting data set structure and on the consistency of the further ecological interpretation. We applied MultiCoLA to a 454 massively parallel tag sequencing data set of V6 ribosomal sequences from marine microbes in temperate coastal sands. Consistent ecological patterns were maintained after removing up to 35-40% rare sequences and similar patterns of beta diversity were observed after denoising the data set by using a preclustering algorithm of 454 flowgrams. This example validates the importance of exploring the impact of the definition of rarity in large community data sets. Future applications can be foreseen for data sets from different types of habitats, e.g. other marine environments, soil and human microbiota. 
PY 2010
PD AUG
SO Nucleic Acids Research
SN 0305-1048
PU Oxford Univ Press
VL 38
IS 15
UT 000281345900004
DI 10.1093/nar/gkq545
ID 59949
ER

EF