Sediment-associated bacterial community and predictive functionalities are influenced by choice of 16S ribosomal RNA hypervariable region(s): An amplicon-based diversity study.
Meta-omics approaches such as high-throughput sequencing of 16S hypervariable region(s) [HVR(s)] is extensively applied for profiling microbial community. Several studies have deciphered the influence of HVR(s) on bacterial diversity; most of these were devoted to human body habitats. Extent to which targeted HVR(s) influences the diversity estimates of environmental samples is rather unclear. Here, we evaluated the performance of five widely used universal primer pairs spanning V1-V3, V3-V4, V4, V5-V6 and V7-V9 HVRs to characterize bacterial diversity and predictive functionality of complex marine sediments. Obtained results revealed that the HVR(s) V4 and V5-V6 represented the higher species richness than others while, V1-V3 and V7-V9 were unsuccessful to detect Bacteroidetes and Planctomycetes. Further, PICRUSt analysis showed that the selected HVR(s) also had significant impact on the predictive functional profile. Conclusively, this study proved that HVR selection has a profound effect on overall results and thus should be selected with utmost caution.
['Rajeev|Meora|M|', 'Sushmitha|T J|TJ|', 'Toleti|Subba Rao|SR|', 'Pandian|Shunmugiah Karutha|SK|']
D001419:Bacteria D044822:Biodiversity D014644:Genetic Variation D019015:Geologic Sediments D059014:High-Throughput Nucleotide Sequencing D064307:Microbiota D012336:RNA, Ribosomal, 16S D017422:Sequence Analysis, DNA
Predictive functionality Marine sediments 16S hypervariable regions Amplicon sequencing