BEsTRF

a tool for optimal resolution of terminal-restriction fragment length polymorphism (T-RFLP) analysis based on user defined primer-enzyme-sequence databases

Blaž Stres (Avtor), James M. Tiedje (Avtor), Boštjan Murovec (Avtor)

Povzetek

BEsTRF (Best Estimated T-RF) provides a stand-alone environment for analyzing primers-enzymes-gene section combinations used in T-RFLP for its optimal resolution. User defined sequence databases of several hundred thousand DNA sequences can be explored and the resolution of user specified sets of primers and restriction endonucleases can be analyzed on either forward or reverse terminal fragments. Sequence quality, primer mismatches, insertions and delitions can be controlled and each primer-pair specific sequence collections can be exported for downstream analyses. The configuration for a novel T-RFLP population profiling using rpoB gene (DNA-directed RNA polymerase, beta subunit) on forward fluorescently labelled primer are presented.

Ključne besede

mikrobiologija;molekularna genetika;BEsTRF;

Podatki

Jezik:	Angleški jezik
Leto izida:	2009
Tipologija:	1.01 - Izvirni znanstveni članek
Organizacija:	UL BF - Biotehniška fakulteta
UDK:	579:575
COBISS:	2450312
ISSN:	1367-4803
Št. ogledov:	1286
Št. prenosov:	437
Ocena:	0 (0 glasov)
Metapodatki:

Ostali podatki

Sekundarni jezik:	Neznan jezik
Vrsta dela (COBISS):	Delo ni kategorizirano
Strani:	str. 1556-1558
Letnik:	ǂIssue ǂ12
Zvezek:	ǂVol. ǂ25
Čas izdaje:	2009
DOI:	10.1093/bioinformatics/btp254
ID:	21392