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KMID : 1161520150190050339
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Animal Cells and Systems
2015 Volume.19 No. 5 p.339 ~ p.349
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Patchy-distributed ciliate (Protozoa) diversity of eight polar communities as determined by 454 amplicon pyrosequencing
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Jung Jae-Ho
Park Kyung-Min
Yang Eun-Jin
Joo Hyoung-Min
Jeon Mi-Sa
Kang Sung-Ho
Choi Han-Gu
Park Mi-Hyun
Min Gi-Sik
Kim Sang-Hee
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Abstract
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To determine ciliate diversity and community structure in the polar ecosystem efficiently, we applied the pyrosequencing technique to the polar samples. To select the appropriate sequencing depth using a ciliate-specific primer, we evaluated different pyrosequencing depths, ranging 4149?112,306 reads. At a 3% distance cutoff for clustering, 750 operational taxonomic units (OTUs) were identified, and 332 were composed of a single read (singletons). The singletons showed a 1.8-fold increase in OTU richness, although their beta diversity showed no significant changes. The ratio of singletons in each sequencing depth was sharply decreased after reaching the sequencing depth of approximately 10,000 reads, and the singletons did not completely disappear even at 73,435 qualified reads. The data set without singletons showed saturated trends in rarefaction curves. In addition, we built a normalized data set without the singletons (1227 reads?×?eight samples). Among the samples, one brackish water having a broad range of salinity (3?23 PSU) at the Arctic coast presented the highest OTU richness (103), while a temporal pool at the Antarctic coast with a high salinity of 53.4 PSU, showed a relatively lower OTUs (8). Each normalized sample showed a distinct community structure. Interestingly, a freshwater lake on King George Island shared relatively higher OTUs with salt-water samples (72.1%), suggesting a higher inter-relationship with closely located coastal water environment.
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KEYWORD
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community structure, eukaryotic microbial ecology, polar ciliate, pyrosequencing, V4 region
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