Comparative methods in identification of bacteria from agricultural waste using biochemical tests and 16S RRNA UARR sequencing

Norlindawati A. P., . and Nurzillah M., . and Siti Hajar I., . and Marliah A., . and M. Azlan J., . and Nurhaslina A. R., . and M. Noor I., . and Rohana A. B., . Comparative methods in identification of bacteria from agricultural waste using biochemical tests and 16S RRNA UARR sequencing. pp. 83-85. ISSN 2180-3897

Identification of microorganisms including bacteria are widely used especially in environmental studies biotechnology clinical microbiology microbial forensics and in research study. The conventional method of bacteria identification is based on phenotypic observation techniques by profiling an organisms metabolic attributes or some aspect of its chemical composition. Then interpretation of test results involves substantial subjective judgement. Currently general 16S rRNA sequencing and specific PCR play an important role in the accurate and faster identification of bacteria. The aim of this study is to compare the identification of the genus or species of bacteria from agricultural waste using conventional microbiology biochemical test and molecular techniques PCR 16S rRNA universal amplified ribosomal region (UARR) sequencing. A total of 72 agricultural waste samples and 2 ATCC culture as positive control were tested. Out of two ATCC bacteria and fifteen bacteria isolates identified by the biochemical test twelve species (71) of bacteria gave exactly the same bacteria genus as the 16S rRNA sequencing results. Aeromonas hydrophilia Alcaligenes faecalis and Acinetobacter calcoaceticus was revealed as Pseudomonas sp. from the sequencing results. As for Alcaligenes sp. the results from the sequencing is Stenotrophomonas maltophilia. Previous reports also showed different results of the same isolate which were from similar classification and closely related to each other. The limited number of biochemical tests available in a laboratory will contribute to misidentification of a proposed specie.

Full text available from: Official URL: http://www.dvs.gov.my/dvs/resources/user_15/MJVR%2...

Abstract

Identification of microorganisms including bacteria are widely used especially in environmental studies biotechnology clinical microbiology microbial forensics and in research study. The conventional method of bacteria identification is based on phenotypic observation techniques by profiling an organisms metabolic attributes or some aspect of its chemical composition. Then interpretation of test results involves substantial subjective judgement. Currently general 16S rRNA sequencing and specific PCR play an important role in the accurate and faster identification of bacteria. The aim of this study is to compare the identification of the genus or species of bacteria from agricultural waste using conventional microbiology biochemical test and molecular techniques PCR 16S rRNA universal amplified ribosomal region (UARR) sequencing. A total of 72 agricultural waste samples and 2 ATCC culture as positive control were tested. Out of two ATCC bacteria and fifteen bacteria isolates identified by the biochemical test twelve species (71) of bacteria gave exactly the same bacteria genus as the 16S rRNA sequencing results. Aeromonas hydrophilia Alcaligenes faecalis and Acinetobacter calcoaceticus was revealed as Pseudomonas sp. from the sequencing results. As for Alcaligenes sp. the results from the sequencing is Stenotrophomonas maltophilia. Previous reports also showed different results of the same isolate which were from similar classification and closely related to each other. The limited number of biochemical tests available in a laboratory will contribute to misidentification of a proposed specie.

[error in script]

Item Type:	Article
AGROVOC Term:	Bacteria
AGROVOC Term:	Identification
AGROVOC Term:	Agricultural wastes
AGROVOC Term:	Ribosomal rna
AGROVOC Term:	Rice straw
AGROVOC Term:	Escherichia coli
AGROVOC Term:	Citrobacter freundii
AGROVOC Term:	Isolation
AGROVOC Term:	Genus
AGROVOC Term:	PCR
Depositing User:	Ms. Suzila Mohamad Kasim
Last Modified:	24 Apr 2025 06:29
URI:	http://webagris.upm.edu.my/id/eprint/25026

Actions (login required)

View Item