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Tan, G. Y. A.
- Draft Genome Sequence of a Novel Actinobacterium from the Family Intrasporangiaceae Isolated from Signy Island, Antarctica
Abstract Views :216 |
PDF Views:74
Authors
Affiliations
1 National Antarctic Research Centre, University of Malaya, 50603 Kuala Lumpur, MY
2 Genomics Facility, Tropical and Medicine Biology Platform, Monash University Malaysia, Jalan Lagoon Selatan, 47500 Bandar Sunway, Selangor, MY
1 National Antarctic Research Centre, University of Malaya, 50603 Kuala Lumpur, MY
2 Genomics Facility, Tropical and Medicine Biology Platform, Monash University Malaysia, Jalan Lagoon Selatan, 47500 Bandar Sunway, Selangor, MY
Source
Current Science, Vol 115, No 9 (2018), Pagination: 1695-1696Abstract
Actinobacterium strain S63T isolated from a soil sample collected from Spindrift Col on Signy Island (South Orkney Islands, maritime Antarctic) is a new species of the Intrasporangiaceae family. Here we report a draft genome sequence with an approximate size of 5 Mbp contained in 54 contigs (69.33% GC content). Preliminary analysis revealed the presence of cold active protein coding sequences, which may indicate an adaptation to the harsh polar environment from which the strain was isolated.Keywords
Actinobacteria, Antarctic Soil, Humibacillus.Full Text
References
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- Cavicchioli, R., Microbial ecology of Antarctic aquatic systems. Nat. Rev. Microbiol., 2015, 13, 691–706.
- Cowan, D. A. and Tow, L. A., Endangered Antarctic environments. Annu. Rev. Microbiol., 2004, 58, 649–690.
- Babalola, O. O., Kirby, B. M., Le Roes-Hill, M., Cook, A. E., Cary, S. C., Burton, S. G. and Cowan, D. A., Phylogenetic analysis of actinobacterial populations associated with Antarctic dry valley mineral soils. Environ. Microbiol., 2009, 11, 566–576.
- Chong, C. W., Goh, Y. S., Convey, P., Pearce, D. A. and Tan, I. K. P., Spatial pattern in Antarctica: what can we learn from Antarctic bacterial isolates? Extremophiles, 2013, 17, 733–745.
- Pan, S. Y., Tan, G. Y. A., Convey, P., Pearce, D. A. and Tan, I. K. P., Diversity and bioactivity of actinomycetes from Signy Island terrestrial soils, maritime Antarctic. Adv. Polar Sci., 2013, 24, 208–212.
- Küster, E. and Williams, S., Selection of media for isolation of streptomycetes. Nature, 1964, 202, 928–929.
- Thomas, S., Biodiversity and Bioactivity of Antarctic Actinobacteria, M Sc thesis, University of Malaya, 2017.
- Gan, H. M., Lee, Y. P. and Austin, C. M., Nanopore long-read guided complete genome assembly of Hydrogenophaga intermedia and genomic insights into 4-aminobenzenesulfonate, p-aminobenzoic acid and hydrogen metabolism in the genus Hydrogenophaga. Front. Microbiol., 2017, 8, 1880.
- Nurk, S. et al., Assembling genomes and mini-metagenomes from highly chimeric reads. In Proceedings of the 17th Annual International Conference on Research in Computational Molecular Biology (eds Deng, M., Jiang, R., Sun, F. and Zhang, X.), 2013, Springer, Berlin, pp. 158–170.
- Boetzer, M., Henkel, C. V., Jansen, H. J., Butler, D. and Pirovano, W., Scaffolding pre-assembled contigs using SSPACE. In Bioinformatics, Oxford, England, 2011, vol. 27, pp. 578–579.
- Boetzer, M. and Pirovano, W., Toward almost closed genomes with GapFiller. Genome Biol., 2012, 13, 1.
- Everatt, M. J., Convey, P., Bale, J. S., Worland, M. R. and Hayward, S. A. L., Responses of invertebrates to temperature and water stress: a polar perspective. J. Therm. Biol., 2014, 54, 118– 132.
- Chen, X. M. et al., Regulation of expression of trehalose-6phosphate synthase during cold shock in Arthrobacter strain A3. Extremophiles, 2011, 15, 499–508.
- Effects of Field Warming on a High Arctic Soil Bacterial Community:A Metagenomic Analysis
Abstract Views :222 |
PDF Views:80
Authors
Affiliations
1 National Antarctic Research Centre and Institute of Biological Sciences, University of Malaya, 50603 Kuala Lumpur, MY
2 British Antarctic Survey, NERC, High Cross, Madingley Road, Cambridge CB3 OET, GB
3 School of Science and Genomics Facility, Monash University Malaysia, Jalan Lagoon Selatan, Bandar Sunway, 47500 Subang Jaya, MY
1 National Antarctic Research Centre and Institute of Biological Sciences, University of Malaya, 50603 Kuala Lumpur, MY
2 British Antarctic Survey, NERC, High Cross, Madingley Road, Cambridge CB3 OET, GB
3 School of Science and Genomics Facility, Monash University Malaysia, Jalan Lagoon Selatan, Bandar Sunway, 47500 Subang Jaya, MY
Source
Current Science, Vol 115, No 9 (2018), Pagination: 1697-1700Abstract
Soil microbial communities in the Arctic, one of the most rapidly warming regions on Earth, play an important role in a range of ecological processes. This report describes initial studies of natural soil bacterial diversity at a High Arctic site on Svalbard, as part of a long-term field environmental manipulation study. The impact of increased soil temperature and water availability on soil microbial communities was investigated. The manipulation experiment, using open-top chambers, was installed in late summer 2014, and the soils were sampled soon after snow melt in July 2015. High throughput sequencing of 16S rRNA genes showed relatively uniform diversity across the study area and revealed no significant initial effect of treatments on bacterial communities over the first 10-month autumn–winter–spring manipulation period.Keywords
Arctic Soil Bacterial Diversity, High Throughput Sequencing, Open Top Chambers, Svalbard.Full Text
References
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- Ganzert, L., Bajerski, F. and Wagner, D., Bacterial community composition and diversity of five different permafrost-affected soils of Northeast Greenland. FEMS Microbiol. Ecol., 2014, 89, 426–441.
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- Geml, J., Morgado, L. N., Semenova, T. A., Welker, J. M., Walker, M. D. and Smets, E., Long-term warming alters richness and composition of taxonomic and functional groups of arctic fungi. FEMS Microbiol. Ecol., 2015, 91, 1–13.
- Analysis of Bacterial Communities of King George and Deception Islands, Antarctica using High-Throughput Sequencing
Abstract Views :233 |
PDF Views:78
Authors
C. Y. Chua
1,
S. T. Yong
1,
M. A. Gonzalez
2,
P. Lavin
2,
Y. K. Cheah
3,
G. Y. A. Tan
4,
C. M. V. L. Wong
1
Affiliations
1 Biotechnology Research Institute, Universiti Malaysia Sabah, 88400 Kota Kinabalu, Sabah, MY
2 Instituto Antartico Chileno, Plaza Munoz Gamero 1055, Punta Arenas, CL
3 Department of Biomedical Science, Universiti Putra Malaysia, 43400 UPM Serdang, Selangor Darul Ehsan, MY
4 National Antarctic Research Centre, University of Malaya, 50603 Kuala Lumpur, MY
1 Biotechnology Research Institute, Universiti Malaysia Sabah, 88400 Kota Kinabalu, Sabah, MY
2 Instituto Antartico Chileno, Plaza Munoz Gamero 1055, Punta Arenas, CL
3 Department of Biomedical Science, Universiti Putra Malaysia, 43400 UPM Serdang, Selangor Darul Ehsan, MY
4 National Antarctic Research Centre, University of Malaya, 50603 Kuala Lumpur, MY
Source
Current Science, Vol 115, No 9 (2018), Pagination: 1701-1705Abstract
King George Island (KGI) and Deception Island (DCI) are members of the South Shetland Islands in Antarctica, each with their own landscape and local environmental factors. Both sites are suitable for longterm monitoring of bacterial diversity shift due to warming, as temperature rises relatively faster than East Antarctica. This study was conducted to determine and compare the baseline diversity of soil bacteria in KGI and DCI. 16S rDNA amplicons of bacteria from both sites were sequenced using Illumina next generation sequencer. Results showed that major phyla in KGI and DCI were Actinobacteria, Proteobacteria, Chloroflexi, Verrucomicrobia, Bacteriodetes and Acidobacteria. The distribution and evenness of the soil bacterial communities varied at genus level. The genera Sphingomonas sp. was predominant at both sites while the subsequent six major genera differed. Two bacterial genera, Legionella and Clostridium were also found in low abundance in both sites, both of which may contain pathogenic members. Further verification will be required to determine whether the pathogenic members of these genera are present in both sites.Keywords
Antarctica, South Shetland Islands, Soil Bacterial Diversity, 16S rDNA, Pyrosequencing.Full Text
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