Abstract
We have developed a new approach for the estimation of bacterial proportional compositions in microbiota based on terminal restriction length polymorphism (T-RFLP) data and a Monte Carlo algorithm. This program estimates proportional compositions by minimizing distances between peak values and the relative abundance of each group, containing several species, estimated from peak areas of capillary electrophoresis for T-RFLP analysis. Oral bacteria in 36 saliva samples obtained from three individuals were analyzed using the program. Upon comparison, the estimated proportional composition obtained from one of the samples matched that from a clone library. Additionally, comparisons among the bacterial proportional compositions of saliva samples obtained from three individuals four times per day for 3 days revealed that the types of microbiota present in each individual did not change within each 24-h time period and were distinguishable from those in other individuals.
| Original language | English |
|---|---|
| Pages (from-to) | 364-372 |
| Number of pages | 9 |
| Journal | Microbial Ecology |
| Volume | 60 |
| Issue number | 2 |
| DOIs | |
| Publication status | Published - 2010 |
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All Science Journal Classification (ASJC) codes
- Ecology, Evolution, Behavior and Systematics
- Ecology
- Soil Science
Cite this
Prediction of Plausible Bacterial Composition Based on Terminal Restriction Fragment Length Polymorphisms using a Monte Carlo Method. / Nakano, Yoshio; Takeshita, Toru; Yasui, Masaki; Yamashita, Yoshihisa.
In: Microbial Ecology, Vol. 60, No. 2, 2010, p. 364-372.Research output: Contribution to journal › Article
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TY - JOUR
T1 - Prediction of Plausible Bacterial Composition Based on Terminal Restriction Fragment Length Polymorphisms using a Monte Carlo Method
AU - Nakano, Yoshio
AU - Takeshita, Toru
AU - Yasui, Masaki
AU - Yamashita, Yoshihisa
PY - 2010
Y1 - 2010
N2 - We have developed a new approach for the estimation of bacterial proportional compositions in microbiota based on terminal restriction length polymorphism (T-RFLP) data and a Monte Carlo algorithm. This program estimates proportional compositions by minimizing distances between peak values and the relative abundance of each group, containing several species, estimated from peak areas of capillary electrophoresis for T-RFLP analysis. Oral bacteria in 36 saliva samples obtained from three individuals were analyzed using the program. Upon comparison, the estimated proportional composition obtained from one of the samples matched that from a clone library. Additionally, comparisons among the bacterial proportional compositions of saliva samples obtained from three individuals four times per day for 3 days revealed that the types of microbiota present in each individual did not change within each 24-h time period and were distinguishable from those in other individuals.
AB - We have developed a new approach for the estimation of bacterial proportional compositions in microbiota based on terminal restriction length polymorphism (T-RFLP) data and a Monte Carlo algorithm. This program estimates proportional compositions by minimizing distances between peak values and the relative abundance of each group, containing several species, estimated from peak areas of capillary electrophoresis for T-RFLP analysis. Oral bacteria in 36 saliva samples obtained from three individuals were analyzed using the program. Upon comparison, the estimated proportional composition obtained from one of the samples matched that from a clone library. Additionally, comparisons among the bacterial proportional compositions of saliva samples obtained from three individuals four times per day for 3 days revealed that the types of microbiota present in each individual did not change within each 24-h time period and were distinguishable from those in other individuals.
UR - http://www.scopus.com/inward/record.url?scp=77956877422&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=77956877422&partnerID=8YFLogxK
U2 - 10.1007/s00248-010-9703-9
DO - 10.1007/s00248-010-9703-9
M3 - Article
C2 - 20574825
AN - SCOPUS:77956877422
VL - 60
SP - 364
EP - 372
JO - Microbial Ecology
JF - Microbial Ecology
SN - 0095-3628
IS - 2
ER -