蛙壶菌（一种两栖动物病原体）基因组的单分子实时测序技术（PacBio）组装
Single-Phase PacBio Assembly of the Genome of the Chytrid Fungus a Pathogen of Amphibia.
作者信息
Sumpter Nicholas, Butler Margi, Poulter Russell
机构信息
Department of Biochemistry, University of Otago, Dunedin, New Zealand.
出版信息
Microbiol Resour Announc. 2018 Nov 29;7(21). doi: 10.1128/MRA.01348-18. eCollection 2018 Nov.
Abstract
Here, we present an updated genome assembly of the diploid chytrid fungus Batrachochytrium dendrobatidis strain RTP6. This strain is part of the global panzootic lineage (GPL) and was isolated in Dunedin, New Zealand. The assembly was generated using PacBio long-read and Illumina short-read data, allowing for the accurate phasing of heterozygosities.
摘要
在此，我们展示了二倍体壶菌蛙壶菌RTP6菌株的更新基因组组装。该菌株是全球泛动物疫情谱系（GPL）的一部分，于新西兰达尼丁分离得到。该组装是利用PacBio长读长和Illumina短读长数据生成的，从而实现了杂合性的准确分型。
相似文献
1
Single-Phase PacBio Assembly of the Genome of the Chytrid Fungus a Pathogen of Amphibia.
Microbiol Resour Announc. 2018 Nov 29;7(21). doi: 10.1128/MRA.01348-18. eCollection 2018 Nov.
2
A survey for Batrachochytrium dendrobatidis in endangered and highly susceptible Vietnamese salamanders (Tylototriton spp.).
J Zoo Wildl Med. 2013 Sep;44(3):627-33. doi: 10.1638/2012-0181R.1.
3
Genomic epidemiology of the emerging pathogen Batrachochytrium dendrobatidis from native and invasive amphibian species in Chile.
Transbound Emerg Dis. 2018 Apr;65(2):309-314. doi: 10.1111/tbed.12775. Epub 2017 Dec 5.
4
PacBio But Not Illumina Technology Can Achieve Fast, Accurate and Complete Closure of the High GC, Complex Two-Chromosome Genome.
Front Microbiol. 2017 Aug 2;8:1448. doi: 10.3389/fmicb.2017.01448. eCollection 2017.
5
Elimination of the amphibian chytrid fungus Batrachochytrium dendrobatidis by Archey's frog Leiopelma archeyi.
Dis Aquat Organ. 2009 Mar 9;84(1):9-15. doi: 10.3354/dao02028.
6
Efficacy of SYBR 14/propidium iodide viability stain for the amphibian chytrid fungus Batrachochytrium dendrobatidis.
Dis Aquat Organ. 2010 Jan 25;88(2):177-81. doi: 10.3354/dao02165.
7
Survey for the pathogenic chytrid fungus Batrachochytrium dendrobatidis in southwestern North Carolina salamander populations.
J Wildl Dis. 2011 Apr;47(2):455-8. doi: 10.7589/0090-3558-47.2.455.
8
Pathogen pollution and the emergence of a deadly amphibian pathogen.
Mol Ecol. 2012 Nov;21(21):5151-4. doi: 10.1111/mec.12013.
9
Consistency of Published Results on the Pathogen Batrachochytrium dendrobatidis in Madagascar: Formal Comment on Kolby et al. Rapid Response to Evaluate the Presence of Amphibian Chytrid Fungus (Batrachochytrium dendrobatidis) and Ranavirus in Wild Amphibian Populations in Madagascar.
PLoS One. 2015 Oct 14;10(10):e0135900. doi: 10.1371/journal.pone.0135900. eCollection 2015.
10
SEASONALITY IN DETECTION IN AMPHIBIANS IN CENTRAL OKLAHOMA, USA.
J Zoo Wildl Med. 2019 Jun 13;50(2):492-497. doi: 10.1638/2018-0103.
引用本文的文献
1
Comparative Genomics Reveals Intra and Inter Species Variation in the Pathogenic Fungus Batrachochytrium dendrobatidis.
Genome Biol Evol. 2025 May 30;17(6). doi: 10.1093/gbe/evaf114.
2
Genome variation in the Batrachochytrium pathogens of amphibians.
PLoS Pathog. 2024 May 23;20(5):e1012218. doi: 10.1371/journal.ppat.1012218. eCollection 2024 May.
本文引用的文献
1
Recent Asian origin of chytrid fungi causing global amphibian declines.
Science. 2018 May 11;360(6389):621-627. doi: 10.1126/science.aar1965.
2
Canu: scalable and accurate long-read assembly via adaptive -mer weighting and repeat separation.
Genome Res. 2017 May;27(5):722-736. doi: 10.1101/gr.215087.116. Epub 2017 Mar 15.
3
Overview of chytrid emergence and impacts on amphibians.
Philos Trans R Soc Lond B Biol Sci. 2016 Dec 5;371(1709). doi: 10.1098/rstb.2015.0465.
4
PacBio Sequencing and Its Applications.
Genomics Proteomics Bioinformatics. 2015 Oct;13(5):278-89. doi: 10.1016/j.gpb.2015.08.002. Epub 2015 Nov 2.
5
Mechanisms and regulation of mitotic recombination in Saccharomyces cerevisiae.
Genetics. 2014 Nov;198(3):795-835. doi: 10.1534/genetics.114.166140.
6
Chromosomal copy number variation, selection and uneven rates of recombination reveal cryptic genome diversity linked to pathogenicity.
PLoS Genet. 2013;9(8):e1003703. doi: 10.1371/journal.pgen.1003703. Epub 2013 Aug 15.
7
Multiple emergences of genetically diverse amphibian-infecting chytrids include a globalized hypervirulent recombinant lineage.
Proc Natl Acad Sci U S A. 2011 Nov 15;108(46):18732-6. doi: 10.1073/pnas.1111915108. Epub 2011 Nov 7.
8
Chytridiomycosis causes amphibian mortality associated with population declines in the rain forests of Australia and Central America.
Proc Natl Acad Sci U S A. 1998 Jul 21;95(15):9031-6. doi: 10.1073/pnas.95.15.9031.
9
Structure and function of telomeres.
Annu Rev Genet. 1989;23:579-604. doi: 10.1146/annurev.ge.23.120189.003051.
Zotero 插件