Genome sequence and analysis of methylotrophic yeast Hansenula polymorpha DL1
Background
Hansenula polymorpha DL1 is a methylotrophic yeast, widely used in fundamental studies of methanol metabolism, peroxisome biogenesis and function, and also as a microbial cell factory for production of recombinant proteins and metabolic engineering towards the goal of high temperature ethanol production.
Results
We have sequenced the 9 Mbp H. polymorpha DL1 genome and performed whole-genome analysis for the H. polymorpha transcriptome obtained from both methanol- and glucose-grown cells. RNA-seq analysis revealed the complex and dynamic character of the H. polymorpha transcriptome under the two studied conditions, identified abundant and highly unregulated expression of 40% of the genome in methanol grown cells, and revealed alternative splicing events. We have identified subtelomerically biased protein families in H. polymorpha, clusters of LTR elements at G + C-poor chromosomal loci in the middle of each of the seven H. polymorpha chromosomes, and established the evolutionary position of H. polymorpha DL1 within a separate yeast clade together with the methylotrophic yeast Pichia pastoris and the non-methylotrophic yeast Dekkera bruxellensis. Intergenome comparisons uncovered extensive gene order reshuffling between the three yeast genomes. Phylogenetic analyses enabled us to reveal patterns of evolution of methylotrophy in yeasts and filamentous fungi.
Conclusions
Our results open new opportunities for in-depth understanding of many aspects of H. polymorpha life cycle, physiology and metabolism as well as genome evolution in methylotrophic yeasts and may lead to novel improvements toward the application of H. polymorpha DL-1 as a microbial cell factory.
Top-30
Journals
|
1
2
3
4
5
6
7
8
|
|
|
FEMS Yeast Research
8 publications, 8.79%
|
|
|
Applied Microbiology and Biotechnology
5 publications, 5.49%
|
|
|
PLoS Genetics
3 publications, 3.3%
|
|
|
Frontiers in Microbiology
2 publications, 2.2%
|
|
|
Journal of Microbiology
2 publications, 2.2%
|
|
|
BMC Biotechnology
2 publications, 2.2%
|
|
|
Scientific Reports
2 publications, 2.2%
|
|
|
Journal of Bioscience and Bioengineering
2 publications, 2.2%
|
|
|
Yeast
2 publications, 2.2%
|
|
|
Genetics
2 publications, 2.2%
|
|
|
Genome Biology and Evolution
2 publications, 2.2%
|
|
|
G3: Genes, Genomes, Genetics
2 publications, 2.2%
|
|
|
BMC Genomics
1 publication, 1.1%
|
|
|
Biomolecular NMR Assignments
1 publication, 1.1%
|
|
|
Moscow University Chemistry Bulletin
1 publication, 1.1%
|
|
|
Doklady Biochemistry and Biophysics
1 publication, 1.1%
|
|
|
FEBS Letters
1 publication, 1.1%
|
|
|
Genes
1 publication, 1.1%
|
|
|
Microorganisms
1 publication, 1.1%
|
|
|
Frontiers in Bioengineering and Biotechnology
1 publication, 1.1%
|
|
|
Fungal Biology and Biotechnology
1 publication, 1.1%
|
|
|
Bioresources and Bioprocessing
1 publication, 1.1%
|
|
|
Biotechnology for Biofuels and Bioproducts
1 publication, 1.1%
|
|
|
Molecular Biotechnology
1 publication, 1.1%
|
|
|
Biotechnology and Bioprocess Engineering
1 publication, 1.1%
|
|
|
Molecular Biology Reports
1 publication, 1.1%
|
|
|
Microbial Cell Factories
1 publication, 1.1%
|
|
|
Chinese Journal of Catalysis
1 publication, 1.1%
|
|
|
Analytical Biochemistry
1 publication, 1.1%
|
|
|
1
2
3
4
5
6
7
8
|
Publishers
|
5
10
15
20
25
|
|
|
Springer Nature
22 publications, 24.18%
|
|
|
Oxford University Press
16 publications, 17.58%
|
|
|
Elsevier
14 publications, 15.38%
|
|
|
Cold Spring Harbor Laboratory
9 publications, 9.89%
|
|
|
Wiley
6 publications, 6.59%
|
|
|
Frontiers Media S.A.
4 publications, 4.4%
|
|
|
MDPI
3 publications, 3.3%
|
|
|
Public Library of Science (PLoS)
3 publications, 3.3%
|
|
|
Pleiades Publishing
2 publications, 2.2%
|
|
|
Han-Gug Misaengmul Hag-hoe/The Microbiological Society of Korea
2 publications, 2.2%
|
|
|
Allerton Press
1 publication, 1.1%
|
|
|
Korean Society for Biotechnology and Bioengineering
1 publication, 1.1%
|
|
|
American Chemical Society (ACS)
1 publication, 1.1%
|
|
|
American Society for Microbiology
1 publication, 1.1%
|
|
|
Proceedings of the National Academy of Sciences (PNAS)
1 publication, 1.1%
|
|
|
Annual Reviews
1 publication, 1.1%
|
|
|
5
10
15
20
25
|
- We do not take into account publications without a DOI.
- Statistics recalculated weekly.
