Open Access
BMC Genomics, volume 14, issue 1, pages 837
Specific features of telomerase RNA from Hansenula polymorpha
Ravin Nikolai V.
1
,
Eldarov Michael A
1
,
Kadnikov Vitaly V.
1
,
Beletsky Alexey V.
1
,
Schneider Jessica
2
,
Mardanova Eugenia S.
1
,
Smekalova Elena M
3
,
Zvereva Maria I.
3
,
Dontsova Olga A.
3
,
Mardanov Andrey V.
1
,
Skryabin Konstantin G.
1
1
Centre “Bioengineering” of RAS, Moscow, Russia
|
2
Institute for Bioinformatics, Center for Biotechnology, Bielefeld University, Bielefeld, Germany
|
Publication type: Journal Article
Publication date: 2013-11-27
PubMed ID:
24279325
Genetics
Biotechnology
Abstract
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.
Citations by journals
|
1
2
3
4
5
6
7
8
|
|
|
FEMS Yeast Research
|
FEMS Yeast Research
8 publications, 10.53%
|
|
Applied Microbiology and Biotechnology
|
Applied Microbiology and Biotechnology
5 publications, 6.58%
|
|
PLoS Genetics
|
PLoS Genetics
3 publications, 3.95%
|
|
Journal of Microbiology
|
Journal of Microbiology, 2, 2.63%
Journal of Microbiology
2 publications, 2.63%
|
|
BMC Biotechnology
|
BMC Biotechnology
2 publications, 2.63%
|
|
Scientific Reports
|
Scientific Reports
2 publications, 2.63%
|
|
Journal of Bioscience and Bioengineering
|
Journal of Bioscience and Bioengineering
2 publications, 2.63%
|
|
Genetics
|
Genetics
2 publications, 2.63%
|
|
Genome Biology and Evolution
|
Genome Biology and Evolution
2 publications, 2.63%
|
|
G3: Genes, Genomes, Genetics
|
G3: Genes, Genomes, Genetics
2 publications, 2.63%
|
|
BMC Genomics
|
BMC Genomics
1 publication, 1.32%
|
|
Biomolecular NMR Assignments
|
Biomolecular NMR Assignments
1 publication, 1.32%
|
|
Moscow University Chemistry Bulletin
|
Moscow University Chemistry Bulletin
1 publication, 1.32%
|
|
Doklady Biochemistry and Biophysics
|
Doklady Biochemistry and Biophysics
1 publication, 1.32%
|
|
FEBS Letters
|
FEBS Letters
1 publication, 1.32%
|
|
Genes
|
Genes
1 publication, 1.32%
|
|
Microorganisms
|
Microorganisms
1 publication, 1.32%
|
|
Frontiers in Bioengineering and Biotechnology
|
Frontiers in Bioengineering and Biotechnology
1 publication, 1.32%
|
|
Frontiers in Microbiology
|
Frontiers in Microbiology
1 publication, 1.32%
|
|
Fungal Biology and Biotechnology
|
Fungal Biology and Biotechnology
1 publication, 1.32%
|
|
Bioresources and Bioprocessing
|
Bioresources and Bioprocessing
1 publication, 1.32%
|
|
Molecular Biotechnology
|
Molecular Biotechnology
1 publication, 1.32%
|
|
Biotechnology and Bioprocess Engineering
|
Biotechnology and Bioprocess Engineering, 1, 1.32%
Biotechnology and Bioprocess Engineering
1 publication, 1.32%
|
|
Molecular Biology Reports
|
Molecular Biology Reports
1 publication, 1.32%
|
|
Microbial Cell Factories
|
Microbial Cell Factories
1 publication, 1.32%
|
|
Chinese Journal of Catalysis
|
Chinese Journal of Catalysis
1 publication, 1.32%
|
|
Analytical Biochemistry
|
Analytical Biochemistry
1 publication, 1.32%
|
|
Current Opinion in Biotechnology
|
Current Opinion in Biotechnology
1 publication, 1.32%
|
|
Journal of Biotechnology
|
Journal of Biotechnology
1 publication, 1.32%
|
|
1
2
3
4
5
6
7
8
|
Citations by publishers
|
2
4
6
8
10
12
14
16
18
|
|
|
Springer Nature
|
Springer Nature
17 publications, 22.37%
|
|
Oxford University Press
|
Oxford University Press
12 publications, 15.79%
|
|
Elsevier
|
Elsevier
8 publications, 10.53%
|
|
Genetics Society of America
|
Genetics Society of America
4 publications, 5.26%
|
|
Pleiades Publishing
|
Pleiades Publishing
3 publications, 3.95%
|
|
Wiley
|
Wiley
3 publications, 3.95%
|
|
Public Library of Science (PLoS)
|
Public Library of Science (PLoS)
3 publications, 3.95%
|
|
Multidisciplinary Digital Publishing Institute (MDPI)
|
Multidisciplinary Digital Publishing Institute (MDPI)
2 publications, 2.63%
|
|
Frontiers Media S.A.
|
Frontiers Media S.A.
2 publications, 2.63%
|
|
Han-Gug Misaengmul Hag-hoe/The Microbiological Society of Korea
|
Han-Gug Misaengmul Hag-hoe/The Microbiological Society of Korea, 2, 2.63%
Han-Gug Misaengmul Hag-hoe/The Microbiological Society of Korea
2 publications, 2.63%
|
|
Korean Society for Biotechnology and Bioengineering
|
Korean Society for Biotechnology and Bioengineering, 1, 1.32%
Korean Society for Biotechnology and Bioengineering
1 publication, 1.32%
|
|
American Chemical Society (ACS)
|
American Chemical Society (ACS)
1 publication, 1.32%
|
|
American Society for Microbiology
|
American Society for Microbiology
1 publication, 1.32%
|
|
Proceedings of the National Academy of Sciences (PNAS)
|
Proceedings of the National Academy of Sciences (PNAS)
1 publication, 1.32%
|
|
Annual Reviews
|
Annual Reviews
1 publication, 1.32%
|
|
Cold Spring Harbor Laboratory
|
Cold Spring Harbor Laboratory
1 publication, 1.32%
|
|
2
4
6
8
10
12
14
16
18
|
- We do not take into account publications that without a DOI.
- Statistics recalculated only for publications connected to researchers, organizations and labs registered on the platform.
- Statistics recalculated weekly.
{"yearsCitations":{"type":"bar","data":{"show":true,"labels":[2014,2015,2016,2017,2018,2019,2020,2021,2022,2023],"ids":[0,0,0,0,0,0,0,0,0,0],"codes":[0,0,0,0,0,0,0,0,0,0],"imageUrls":["","","","","","","","","",""],"datasets":[{"label":"Citations number","data":[5,11,8,11,8,10,4,10,6,3],"backgroundColor":["#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6"],"percentage":["6.58","14.47","10.53","14.47","10.53","13.16","5.26","13.16","7.89","3.95"],"barThickness":null}]},"options":{"indexAxis":"x","maintainAspectRatio":true,"scales":{"y":{"ticks":{"precision":0,"autoSkip":false,"font":{"family":"Montserrat"},"color":"#000000"}},"x":{"ticks":{"stepSize":1,"precision":0,"font":{"family":"Montserrat"},"color":"#000000"}}},"plugins":{"legend":{"position":"top","labels":{"font":{"family":"Montserrat"},"color":"#000000"}},"title":{"display":true,"text":"Citations per year","font":{"size":24,"family":"Montserrat","weight":600},"color":"#000000"}}}},"journals":{"type":"bar","data":{"show":true,"labels":["FEMS Yeast Research","Applied Microbiology and Biotechnology","PLoS Genetics","Journal of Microbiology","BMC Biotechnology","Scientific Reports","Journal of Bioscience and Bioengineering","Genetics","Genome Biology and Evolution","G3: Genes, Genomes, Genetics","BMC Genomics","Biomolecular NMR Assignments","Moscow University Chemistry Bulletin","Doklady Biochemistry and Biophysics","FEBS Letters","Genes","Microorganisms","Frontiers in Bioengineering and Biotechnology","Frontiers in Microbiology","Fungal Biology and Biotechnology","Bioresources and Bioprocessing","Molecular Biotechnology","Biotechnology and Bioprocess Engineering","Molecular Biology Reports","Microbial Cell Factories","Chinese Journal of Catalysis","Analytical Biochemistry","Current Opinion in Biotechnology","Journal of Biotechnology"],"ids":[7211,17681,785,19204,8791,13767,22021,10675,15411,14038,7708,15938,10010,3773,405,8879,6197,13389,24403,17405,18375,8539,6730,2791,23412,14622,22528,6435,13696],"codes":[0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0],"imageUrls":["\/storage\/images\/resized\/yNSijlgQghQF53VZuyFLA30CKDe4j3HK74Vtpnxa_medium.webp","\/storage\/images\/resized\/voXLqlsvTwv5p3iMQ8Dhs95nqB4AXOG7Taj7G4ra_medium.webp","\/storage\/images\/resized\/PRGhlgB4OKRltSNtT39eA6wlnOTGRap1QQ6FQHih_medium.webp","","\/storage\/images\/resized\/voXLqlsvTwv5p3iMQ8Dhs95nqB4AXOG7Taj7G4ra_medium.webp","\/storage\/images\/resized\/voXLqlsvTwv5p3iMQ8Dhs95nqB4AXOG7Taj7G4ra_medium.webp","\/storage\/images\/resized\/GDnYOu1UpMMfMMRV6Aqle4H0YLLsraeD9IP9qScG_medium.webp","\/storage\/images\/resized\/9EVpRifnnUJt6oHGY5GfsfSXTEz5wzbdgnZqiF5m_medium.webp","\/storage\/images\/resized\/yNSijlgQghQF53VZuyFLA30CKDe4j3HK74Vtpnxa_medium.webp","\/storage\/images\/resized\/9EVpRifnnUJt6oHGY5GfsfSXTEz5wzbdgnZqiF5m_medium.webp","\/storage\/images\/resized\/voXLqlsvTwv5p3iMQ8Dhs95nqB4AXOG7Taj7G4ra_medium.webp","\/storage\/images\/resized\/voXLqlsvTwv5p3iMQ8Dhs95nqB4AXOG7Taj7G4ra_medium.webp","\/storage\/images\/resized\/oZgeErrVFhuDksyqFURLvYS1wtVSBWczh001igGo_medium.webp","\/storage\/images\/resized\/oZgeErrVFhuDksyqFURLvYS1wtVSBWczh001igGo_medium.webp","\/storage\/images\/resized\/bRyGpdm98BkAUYiK1YFNpl5Z7hPu6Gd87gbIeuG3_medium.webp","\/storage\/images\/resized\/MjH1ITP7lMYGxeqUZfkt2BnVLgjkk413jwBV97XX_medium.webp","\/storage\/images\/resized\/MjH1ITP7lMYGxeqUZfkt2BnVLgjkk413jwBV97XX_medium.webp","\/storage\/images\/resized\/4QWA67eqfcfyOiA8Wk7YnqroHFqQbTsmDJUYTCTg_medium.webp","\/storage\/images\/resized\/4QWA67eqfcfyOiA8Wk7YnqroHFqQbTsmDJUYTCTg_medium.webp","\/storage\/images\/resized\/voXLqlsvTwv5p3iMQ8Dhs95nqB4AXOG7Taj7G4ra_medium.webp","\/storage\/images\/resized\/voXLqlsvTwv5p3iMQ8Dhs95nqB4AXOG7Taj7G4ra_medium.webp","\/storage\/images\/resized\/voXLqlsvTwv5p3iMQ8Dhs95nqB4AXOG7Taj7G4ra_medium.webp","","\/storage\/images\/resized\/voXLqlsvTwv5p3iMQ8Dhs95nqB4AXOG7Taj7G4ra_medium.webp","\/storage\/images\/resized\/voXLqlsvTwv5p3iMQ8Dhs95nqB4AXOG7Taj7G4ra_medium.webp","\/storage\/images\/resized\/GDnYOu1UpMMfMMRV6Aqle4H0YLLsraeD9IP9qScG_medium.webp","\/storage\/images\/resized\/GDnYOu1UpMMfMMRV6Aqle4H0YLLsraeD9IP9qScG_medium.webp","\/storage\/images\/resized\/GDnYOu1UpMMfMMRV6Aqle4H0YLLsraeD9IP9qScG_medium.webp","\/storage\/images\/resized\/GDnYOu1UpMMfMMRV6Aqle4H0YLLsraeD9IP9qScG_medium.webp"],"datasets":[{"label":"","data":[8,5,3,2,2,2,2,2,2,2,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1],"backgroundColor":["#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6"],"percentage":[10.53,6.58,3.95,2.63,2.63,2.63,2.63,2.63,2.63,2.63,1.32,1.32,1.32,1.32,1.32,1.32,1.32,1.32,1.32,1.32,1.32,1.32,1.32,1.32,1.32,1.32,1.32,1.32,1.32],"barThickness":13}]},"options":{"indexAxis":"y","maintainAspectRatio":false,"scales":{"y":{"ticks":{"precision":0,"autoSkip":false,"font":{"family":"Montserrat"},"color":"#000000"}},"x":{"ticks":{"stepSize":null,"precision":0,"font":{"family":"Montserrat"},"color":"#000000"}}},"plugins":{"legend":{"position":"top","labels":{"font":{"family":"Montserrat"},"color":"#000000"}},"title":{"display":true,"text":"Journals","font":{"size":24,"family":"Montserrat","weight":600},"color":"#000000"}}}},"publishers":{"type":"bar","data":{"show":true,"labels":["Springer Nature","Oxford University Press","Elsevier","Genetics Society of America","Pleiades Publishing","Wiley","Public Library of Science (PLoS)","Multidisciplinary Digital Publishing Institute (MDPI)","Frontiers Media S.A.","Han-Gug Misaengmul Hag-hoe\/The Microbiological Society of Korea","Korean Society for Biotechnology and Bioengineering","American Chemical Society (ACS)","American Society for Microbiology","Proceedings of the National Academy of Sciences (PNAS)","Annual Reviews","Cold Spring Harbor Laboratory"],"ids":[8,19,17,3356,101,11,344,202,208,5463,2287,40,142,162,6941,6909],"codes":[0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0],"imageUrls":["\/storage\/images\/resized\/voXLqlsvTwv5p3iMQ8Dhs95nqB4AXOG7Taj7G4ra_medium.webp","\/storage\/images\/resized\/yNSijlgQghQF53VZuyFLA30CKDe4j3HK74Vtpnxa_medium.webp","\/storage\/images\/resized\/GDnYOu1UpMMfMMRV6Aqle4H0YLLsraeD9IP9qScG_medium.webp","\/storage\/images\/resized\/9EVpRifnnUJt6oHGY5GfsfSXTEz5wzbdgnZqiF5m_medium.webp","\/storage\/images\/resized\/oZgeErrVFhuDksyqFURLvYS1wtVSBWczh001igGo_medium.webp","\/storage\/images\/resized\/bRyGpdm98BkAUYiK1YFNpl5Z7hPu6Gd87gbIeuG3_medium.webp","\/storage\/images\/resized\/PRGhlgB4OKRltSNtT39eA6wlnOTGRap1QQ6FQHih_medium.webp","\/storage\/images\/resized\/MjH1ITP7lMYGxeqUZfkt2BnVLgjkk413jwBV97XX_medium.webp","\/storage\/images\/resized\/4QWA67eqfcfyOiA8Wk7YnqroHFqQbTsmDJUYTCTg_medium.webp","","","\/storage\/images\/resized\/iLiQsFqFaSEx6chlGQ5fbAwF6VYU3WWa08hkss0g_medium.webp","\/storage\/images\/resized\/VPE7q24PXoHr5SS2SqfEgxccSMUxWLfZINOX60uo_medium.webp","\/storage\/images\/resized\/mxFdPe9qujsfvfYfcN0QOclAiYORFb0xrRlwV8gs_medium.webp","\/storage\/images\/resized\/A7oGMwx1m3fFJlKJvQUVra8h0itmEa7JZW0q3Q0b_medium.webp","\/storage\/images\/resized\/hg4jJjT8wVGtHstBCc0zk465Mg9pLx3G4odCDOqE_medium.webp"],"datasets":[{"label":"","data":[17,12,8,4,3,3,3,2,2,2,1,1,1,1,1,1],"backgroundColor":["#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6","#3B82F6"],"percentage":[22.37,15.79,10.53,5.26,3.95,3.95,3.95,2.63,2.63,2.63,1.32,1.32,1.32,1.32,1.32,1.32],"barThickness":13}]},"options":{"indexAxis":"y","maintainAspectRatio":false,"scales":{"y":{"ticks":{"precision":0,"autoSkip":false,"font":{"family":"Montserrat"},"color":"#000000"}},"x":{"ticks":{"stepSize":null,"precision":0,"font":{"family":"Montserrat"},"color":"#000000"}}},"plugins":{"legend":{"position":"top","labels":{"font":{"family":"Montserrat"},"color":"#000000"}},"title":{"display":true,"text":"Publishers","font":{"size":24,"family":"Montserrat","weight":600},"color":"#000000"}}}}}
Metrics
Cite this
GOST |
RIS |
BibTex |
MLA
Cite this
GOST
Copy
Ravin N. V. et al. Specific features of telomerase RNA from Hansenula polymorpha // BMC Genomics. 2013. Vol. 14. No. 1. p. 837.
GOST all authors (up to 50)
Copy
Ravin N. V., Eldarov M. A., Kadnikov V. V., Beletsky A. V., Schneider J., Mardanova E., Smekalova E. M., Zvereva M. I., Dontsova O. A., Mardanov A. V., Skryabin K. G. Specific features of telomerase RNA from Hansenula polymorpha // BMC Genomics. 2013. Vol. 14. No. 1. p. 837.
Cite this
RIS
Copy
TY - JOUR
DO - 10.1186/1471-2164-14-837
UR - https://doi.org/10.1186%2F1471-2164-14-837
TI - Specific features of telomerase RNA from Hansenula polymorpha
T2 - BMC Genomics
AU - Ravin, Nikolai V.
AU - Eldarov, Michael A
AU - Kadnikov, Vitaly V.
AU - Beletsky, Alexey V.
AU - Schneider, Jessica
AU - Mardanova, Eugenia S.
AU - Smekalova, Elena M
AU - Zvereva, Maria I.
AU - Dontsova, Olga A.
AU - Mardanov, Andrey V.
AU - Skryabin, Konstantin G.
PY - 2013
DA - 2013/11/27 00:00:00
PB - Springer Nature
SP - 837
IS - 1
VL - 14
PMID - 24279325
SN - 1471-2164
ER -
Cite this
BibTex
Copy
@article{2013_Ravin,
author = {Nikolai V. Ravin and Michael A Eldarov and Vitaly V. Kadnikov and Alexey V. Beletsky and Jessica Schneider and Eugenia S. Mardanova and Elena M Smekalova and Maria I. Zvereva and Olga A. Dontsova and Andrey V. Mardanov and Konstantin G. Skryabin},
title = {Specific features of telomerase RNA from Hansenula polymorpha},
journal = {BMC Genomics},
year = {2013},
volume = {14},
publisher = {Springer Nature},
month = {nov},
url = {https://doi.org/10.1186%2F1471-2164-14-837},
number = {1},
pages = {837},
doi = {10.1186/1471-2164-14-837}
}
Cite this
MLA
Copy
Ravin, Nikolai V., et al. “Specific features of telomerase RNA from Hansenula polymorpha.” BMC Genomics, vol. 14, no. 1, Nov. 2013, p. 837. https://doi.org/10.1186%2F1471-2164-14-837.
Profiles