TY - JOUR
T1 - Geospatial distribution of viromes in tropical freshwater ecosystems
AU - Gu, Xiaoqiong
AU - Tay, Qi Xiang Martin
AU - Te, Shu Harn
AU - Saeidi, Nazanin
AU - Goh, Shin Giek
AU - Kushmaro, Ariel
AU - Thompson, Janelle R.
AU - Gin, Karina Yew Hoong
N1 - Funding Information:
This research grant is supported by the Singapore National Research Foundation under its Environment and Water Research Programme and administered by PUB, Singapore's national water agency (Ref: 1301-IRIS-37 [IDD 90301/1/65]). We would like to thank National University of Singapore and Center for Environmental Sensing and Modeling (CENSAM) for supporting this research.
Funding Information:
This research grant is supported by the Singapore National Research Foundation under its Environment and Water Research Programme and administered by PUB, Singapore's national water agency (Ref: 1301-IRIS-37 [IDD 90301/1/65] ). We would like to thank National University of Singapore and Center for Environmental Sensing and Modeling (CENSAM) for supporting this research. Appendix A
Publisher Copyright:
© 2018 Elsevier Ltd
PY - 2018/6/15
Y1 - 2018/6/15
N2 - This study seeks to understand the general distribution of virome abundance and diversity in tropical freshwater ecosystems in Singapore and the geospatial distribution of the virome under different landuse patterns. Correlations between diversity, environmental parameters and land use patterns were analyzed and significant correlations were highlighted. Overall, the majority (65.5%) of the annotated virome belonged to bacteriophages. The percentage of Caudovirales was higher in reservoirs whereas the percentages of Dicistroviridae, Microviridae and Circoviridae were higher in tributaries. Reservoirs showed a higher Shannon-index virome diversity compared to upstream tributaries. Land use (urbanized, agriculture and parkland areas) influenced the characteristics of the virome distribution pattern. Dicistroviridae and Microviridae were enriched in urbanized tributaries while Mimiviridae, Phycodnaviridae, Siphoviridae and Podoviridae were enriched in parkland reservoirs. Several sequences closely related to the emerging zoonotic virus, cyclovirus, and the human-related virus (human picobirnavirus), were also detected. In addition, the relative abundance of PMMoV (pepper mild mottle virus) sequences was significantly correlated with RT-qPCR measurements (0.588 < r < 0.879, p < 0.05). This study shows that spatial factors (e.g., reservoirs/tributaries, land use) are the main drivers of the viral community structure in tropical freshwater ecosystems.
AB - This study seeks to understand the general distribution of virome abundance and diversity in tropical freshwater ecosystems in Singapore and the geospatial distribution of the virome under different landuse patterns. Correlations between diversity, environmental parameters and land use patterns were analyzed and significant correlations were highlighted. Overall, the majority (65.5%) of the annotated virome belonged to bacteriophages. The percentage of Caudovirales was higher in reservoirs whereas the percentages of Dicistroviridae, Microviridae and Circoviridae were higher in tributaries. Reservoirs showed a higher Shannon-index virome diversity compared to upstream tributaries. Land use (urbanized, agriculture and parkland areas) influenced the characteristics of the virome distribution pattern. Dicistroviridae and Microviridae were enriched in urbanized tributaries while Mimiviridae, Phycodnaviridae, Siphoviridae and Podoviridae were enriched in parkland reservoirs. Several sequences closely related to the emerging zoonotic virus, cyclovirus, and the human-related virus (human picobirnavirus), were also detected. In addition, the relative abundance of PMMoV (pepper mild mottle virus) sequences was significantly correlated with RT-qPCR measurements (0.588 < r < 0.879, p < 0.05). This study shows that spatial factors (e.g., reservoirs/tributaries, land use) are the main drivers of the viral community structure in tropical freshwater ecosystems.
KW - Diversity
KW - Freshwater ecosystems
KW - Geospatial distribution
KW - Human-related viruses
KW - Land use
KW - Virome
UR - http://www.scopus.com/inward/record.url?scp=85043584323&partnerID=8YFLogxK
U2 - 10.1016/j.watres.2018.03.017
DO - 10.1016/j.watres.2018.03.017
M3 - Article
AN - SCOPUS:85043584323
SN - 0043-1354
VL - 137
SP - 220
EP - 232
JO - Water Research
JF - Water Research
ER -
