RT Journal Article
SR Electronic
T1 Identification of a novel interspecific hybrid yeast from a metagenomic open fermentation sample using Hi-C
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 150722
DO 10.1101/150722
A1 Caiti Smukowski Heil
A1 Joshua N. Burton
A1 Ivan Liachko
A1 Anne Friedrich
A1 Noah A. Hanson
A1 Cody L. Morris
A1 Joseph Schacherer
A1 Jay Shendure
A1 James H. Thomas
A1 Maitreya J. Dunham
YR 2017
UL http://biorxiv.org/content/early/2017/06/15/150722.abstract
AB Interspecific hybridization is a common mechanism enabling genetic diversification and adaptation; however, the detection of hybrid species has been quite difficult. The identification of microbial hybrids is made even more complicated, as most environmental microbes are resistant to culturing and must be studied in their native mixed communities. We have previously adapted the chromosome conformation capture method Hi-C to the assembly of genomes from mixed populations. Here, we show the method’s application in assembling a hybrid genome directly from an uncultured, mixed population from an open-fermentation beer sample. Our assembly method has enabled us to de-convolute 4 bacterial and 4 yeast genomes from this sample, including a putative yeast hybrid. Downstream isolation and analysis of this hybrid confirmed its genome to consist of Pichia membranifaciens and that of another related, but undescribed yeast. Our work shows that Hi-C-based metagenomic methods can overcome the limitation of traditional sequencing methods in studying complex mixtures of genomes.Nucleic Acid Sequences Sequences are deposited in NCBI Assembly under the Project ID PRJNA390460.