High-quality genome sequence of Pichia pastoris CBS7435

Küberl A, Schneider J, Thallinger GG, Anderl I, Wibberg D, Hajek T, Jaenicke S, Brinkrolf K, Goesmann A, Szczepanowski R, Pühler A, et al. (2011)
Journal of Biotechnology 154(4): 312-320.

Download
Es wurde kein Volltext hochgeladen. Nur Publikationsnachweis!
Zeitschriftenaufsatz | Veröffentlicht | Englisch
Autor
Abstract / Bemerkung
The methylotrophic yeast Pichia pastoris (Komagataella phaffii) CBS7435 is the parental strain of commonly used P. pastoris recombinant protein production hosts making it well suited for improving the understanding of associated genomic features. Here, we present a 9.35Mbp high-quality genome sequence of P. pastoris CBS7435 established by a combination of 454 and Illumina sequencing. An automatic annotation of the genome sequence yielded 5007 protein-coding genes, 124 tRNAs and 29 rRNAs. Moreover, we report the complete DNA sequence of the first mitochondrial genome of a methylotrophic yeast. Fifteen genes encoding proteins, 2 rRNA and 25 tRNA loci were identified on the 35.7kbp circular, mitochondrial DNA. Furthermore, the architecture of the putative alpha mating factor protein of P. pastoris CBS7435 turned out to be more complex than the corresponding protein of Saccharomyces cerevisiae. Copyright 2011 Elsevier B.V. All rights reserved.
Erscheinungsjahr
Zeitschriftentitel
Journal of Biotechnology
Band
154
Ausgabe
4
Seite(n)
312-320
ISSN
PUB-ID

Zitieren

Küberl A, Schneider J, Thallinger GG, et al. High-quality genome sequence of Pichia pastoris CBS7435. Journal of Biotechnology. 2011;154(4):312-320.
Küberl, A., Schneider, J., Thallinger, G. G., Anderl, I., Wibberg, D., Hajek, T., Jaenicke, S., et al. (2011). High-quality genome sequence of Pichia pastoris CBS7435. Journal of Biotechnology, 154(4), 312-320. doi:10.1016/j.jbiotec.2011.04.014
Küberl, A., Schneider, J., Thallinger, G. G., Anderl, I., Wibberg, D., Hajek, T., Jaenicke, S., Brinkrolf, K., Goesmann, A., Szczepanowski, R., et al. (2011). High-quality genome sequence of Pichia pastoris CBS7435. Journal of Biotechnology 154, 312-320.
Küberl, A., et al., 2011. High-quality genome sequence of Pichia pastoris CBS7435. Journal of Biotechnology, 154(4), p 312-320.
A. Küberl, et al., “High-quality genome sequence of Pichia pastoris CBS7435”, Journal of Biotechnology, vol. 154, 2011, pp. 312-320.
Küberl, A., Schneider, J., Thallinger, G.G., Anderl, I., Wibberg, D., Hajek, T., Jaenicke, S., Brinkrolf, K., Goesmann, A., Szczepanowski, R., Pühler, A., Schwab, H., Glieder, A., Pichler, H.: High-quality genome sequence of Pichia pastoris CBS7435. Journal of Biotechnology. 154, 312-320 (2011).
Küberl, Andreas, Schneider, Jessica, Thallinger, Gerhard G., Anderl, Ingund, Wibberg, Daniel, Hajek, Tanja, Jaenicke, Sebastian, Brinkrolf, Karina, Goesmann, Alexander, Szczepanowski, Rafael, Pühler, Alfred, Schwab, Helmut, Glieder, Anton, and Pichler, Harald. “High-quality genome sequence of Pichia pastoris CBS7435”. Journal of Biotechnology 154.4 (2011): 312-320.

75 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

Discovery and Evolution of New Domains in Yeast Heterochromatin Factor Sir4 and Its Partner Esc1.
Faure G, Jézéquel K, Roisné-Hamelin F, Bitard-Feildel T, Lamiable A, Marcand S, Callebaut I., Genome Biol Evol 11(2), 2019
PMID: 30668669
Pichia pastoris Alcohol Oxidase 1 (AOX1) Core Promoter Engineering by High Resolution Systematic Mutagenesis.
Portela RMC, Vogl T, Ebner K, Oliveira R, Glieder A., Biotechnol J 13(3), 2018
PMID: 29125227
Metabolic Engineering of Escherichia coli for para-Amino-Phenylethanol and para-Amino-Phenylacetic Acid Biosynthesis.
Mohammadi Nargesi B, Sprenger GA, Youn JW., Front Bioeng Biotechnol 6(), 2018
PMID: 30662895
Effect of Pyruvate Decarboxylase Knockout on Product Distribution Using Pichia pastoris (Komagataella phaffii) Engineered for Lactic Acid Production.
Melo NTM, Mulder KCL, Nicola AM, Carvalho LS, Menino GS, Mulinari E, Parachin NS., Bioengineering (Basel) 5(1), 2018
PMID: 29462904
Effect of Plasmid Design and Type of Integration Event on Recombinant Protein Expression in Pichia pastoris.
Vogl T, Gebbie L, Palfreyman RW, Speight R., Appl Environ Microbiol 84(6), 2018
PMID: 29330186
A Stable, Autonomously Replicating Plasmid Vector Containing Pichia pastoris Centromeric DNA.
Nakamura Y, Nishi T, Noguchi R, Ito Y, Watanabe T, Nishiyama T, Aikawa S, Hasunuma T, Ishii J, Okubo Y, Kondo A., Appl Environ Microbiol 84(15), 2018
PMID: 29802190
Identification and characterization of the Komagataella phaffii mating pheromone genes.
Heistinger L, Moser J, Tatto NE, Valli M, Gasser B, Mattanovich D., FEMS Yeast Res 18(5), 2018
PMID: 29718186
Deletion of DNA ligase IV homolog confers higher gene targeting efficiency on homologous recombination in Komagataella phaffii.
Ito Y, Watanabe T, Aikawa S, Nishi T, Nishiyama T, Nakamura Y, Hasunuma T, Okubo Y, Ishii J, Kondo A., FEMS Yeast Res 18(7), 2018
PMID: 30010892
Implications of evolutionary engineering for growth and recombinant protein production in methanol-based growth media in the yeast Pichia pastoris.
Moser JW, Prielhofer R, Gerner SM, Graf AB, Wilson IB, Mattanovich D, Dragosits M., Microb Cell Fact 16(1), 2017
PMID: 28302114
Disruption of genes involved in CORVET complex leads to enhanced secretion of heterologous carboxylesterase only in protease deficient Pichia pastoris.
Marsalek L, Gruber C, Altmann F, Aleschko M, Mattanovich D, Gasser B, Puxbaum V., Biotechnol J 12(5), 2017
PMID: 28230321
A Mitochondrial Autonomously Replicating Sequence from Pichia pastoris for Uniform High Level Recombinant Protein Production.
Schwarzhans JP, Luttermann T, Wibberg D, Winkler A, Hübner W, Huser T, Kalinowski J, Friehs K., Front Microbiol 8(), 2017
PMID: 28512458
Comprehensive reconstruction and evaluation of Pichia pastoris genome-scale metabolic model that accounts for 1243 ORFs.
Ye R, Huang M, Lu H, Qian J, Lin W, Chu J, Zhuang Y, Zhang S., Bioresour Bioprocess 4(1), 2017
PMID: 28546903
Towards systems metabolic engineering in Pichia pastoris.
Schwarzhans JP, Luttermann T, Geier M, Kalinowski J, Friehs K., Biotechnol Adv 35(6), 2017
PMID: 28760369
The mitochondrial genome of the plant-pathogenic fungus Stemphylium lycopersici uncovers a dynamic structure due to repetitive and mobile elements.
Franco MEE, López SMY, Medina R, Lucentini CG, Troncozo MI, Pastorino GN, Saparrat MCN, Balatti PA., PLoS One 12(10), 2017
PMID: 28972995
Functional analysis of alcohol dehydrogenase (ADH) genes in Pichia pastoris.
Karaoglan M, Karaoglan FE, Inan M., Biotechnol Lett 38(3), 2016
PMID: 26573637
Recombinant production of a peroxidase-protein G fusion protein in Pichia pastoris.
Krainer FW, Darnhofer B, Birner-Gruenberger R, Glieder A., J Biotechnol 219(), 2016
PMID: 26707805
Complete mitochondrial genome of the scleractinian coral Porites rus.
Celis JS, Wibberg D, Winkler A, Wilke T, Kalinowski J., Mitochondrial DNA A DNA Mapp Seq Anal 27(5), 2016
PMID: 27158873
Bacterial fermentation platform for producing artificial aromatic amines.
Masuo S, Zhou S, Kaneko T, Takaya N., Sci Rep 6(), 2016
PMID: 27167511
Integration event induced changes in recombinant protein productivity in Pichia pastoris discovered by whole genome sequencing and derived vector optimization.
Schwarzhans JP, Wibberg D, Winkler A, Luttermann T, Kalinowski J, Friehs K., Microb Cell Fact 15(), 2016
PMID: 27206580
Complete Chloroplast and Mitochondrial Genome Sequences of the Hydrocarbon Oil-Producing Green Microalga Botryococcus braunii Race B (Showa).
Blifernez-Klassen O, Wibberg D, Winkler A, Blom J, Goesmann A, Kalinowski J, Kruse O., Genome Announc 4(3), 2016
PMID: 27284138
Crystal structure of linoleate 13R-manganese lipoxygenase in complex with an adhesion protein.
Chen Y, Wennman A, Karkehabadi S, Engström Å, Oliw EH., J Lipid Res 57(8), 2016
PMID: 27313058
Curation of the genome annotation of Pichia pastoris (Komagataella phaffii) CBS7435 from gene level to protein function.
Valli M, Tatto NE, Peymann A, Gruber C, Landes N, Ekker H, Thallinger GG, Mattanovich D, Gasser B, Graf AB., FEMS Yeast Res 16(6), 2016
PMID: 27388471
Comparative genomics and transcriptomics of Pichia pastoris.
Love KR, Shah KA, Whittaker CA, Wu J, Bartlett MC, Ma D, Leeson RL, Priest M, Borowsky J, Young SK, Love JC., BMC Genomics 17(), 2016
PMID: 27495311
Centromeres of the Yeast Komagataella phaffii (Pichia pastoris) Have a Simple Inverted-Repeat Structure.
Coughlan AY, Hanson SJ, Byrne KP, Wolfe KH., Genome Biol Evol 8(8), 2016
PMID: 27497317
An assemblage of Frankia Cluster II strains from California contains the canonical nod genes and also the sulfotransferase gene nodH.
Nguyen TV, Wibberg D, Battenberg K, Blom J, Vanden Heuvel B, Berry AM, Kalinowski J, Pawlowski K., BMC Genomics 17(1), 2016
PMID: 27729005
Non-canonical integration events in Pichia pastoris encountered during standard transformation analysed with genome sequencing.
Schwarzhans JP, Wibberg D, Winkler A, Luttermann T, Kalinowski J, Friehs K., Sci Rep 6(), 2016
PMID: 27958335
Inactivation of a GAL4-like transcription factor improves cell fitness and product yield in glycoengineered Pichia pastoris strains.
Jiang B, Argyros R, Bukowski J, Nelson S, Sharkey N, Kim S, Copeland V, Davidson RC, Chen R, Zhuang J, Sethuraman N, Stadheim TA., Appl Environ Microbiol 81(1), 2015
PMID: 25344235
Complete genome sequence of the novel Porphyromonadaceae bacterium strain ING2-E5B isolated from a mesophilic lab-scale biogas reactor.
Hahnke S, Maus I, Wibberg D, Tomazetto G, Pühler A, Klocke M, Schlüter A., J Biotechnol 193(), 2015
PMID: 25444871
Optimizing cofactor availability for the production of recombinant heme peroxidase in Pichia pastoris.
Krainer FW, Capone S, Jäger M, Vogl T, Gerstmann M, Glieder A, Herwig C, Spadiut O., Microb Cell Fact 14(), 2015
PMID: 25586641
Expression of enzymes for the usage in food and feed industry with Pichia pastoris.
Spohner SC, Müller H, Quitmann H, Czermak P., J Biotechnol 202(), 2015
PMID: 25687104
The structure of the Cyberlindnera jadinii genome and its relation to Candida utilis analyzed by the occurrence of single nucleotide polymorphisms.
Rupp O, Brinkrolf K, Buerth C, Kunigo M, Schneider J, Jaenicke S, Goesmann A, Pühler A, Jaeger KE, Ernst JF., J Biotechnol 211(), 2015
PMID: 26150016
Systems-level organization of yeast methylotrophic lifestyle.
Rußmayer H, Buchetics M, Gruber C, Valli M, Grillitsch K, Modarres G, Guerrasio R, Klavins K, Neubauer S, Drexler H, Steiger M, Troyer C, Al Chalabi A, Krebiehl G, Sonntag D, Zellnig G, Daum G, Graf AB, Altmann F, Koellensperger G, Hann S, Sauer M, Mattanovich D, Gasser B., BMC Biol 13(), 2015
PMID: 26400155
Methanol regulated yeast promoters: production vehicles and toolbox for synthetic biology.
Gasser B, Steiger MG, Mattanovich D., Microb Cell Fact 14(), 2015
PMID: 26627685
Genetically engineered Pichia pastoris yeast for conversion of glucose to xylitol by a single-fermentation process.
Cheng H, Lv J, Wang H, Wang B, Li Z, Deng Z., Appl Microbiol Biotechnol 98(8), 2014
PMID: 24419799
High variability of mitochondrial gene order among fungi.
Aguileta G, de Vienne DM, Ross ON, Hood ME, Giraud T, Petit E, Gabaldón T., Genome Biol Evol 6(2), 2014
PMID: 24504088
Towards improved membrane protein production in Pichia pastoris: general and specific transcriptional response to membrane protein overexpression.
Vogl T, Thallinger GG, Zellnig G, Drew D, Cregg JM, Glieder A, Freigassner M., N Biotechnol 31(6), 2014
PMID: 24594271
Isolation and characterization of the plasma membrane from the yeast Pichia pastoris.
Grillitsch K, Tarazona P, Klug L, Wriessnegger T, Zellnig G, Leitner E, Feussner I, Daum G., Biochim Biophys Acta 1838(7), 2014
PMID: 24680652
Production of the sesquiterpenoid (+)-nootkatone by metabolic engineering of Pichia pastoris.
Wriessnegger T, Augustin P, Engleder M, Leitner E, Müller M, Kaluzna I, Schürmann M, Mink D, Zellnig G, Schwab H, Pichler H., Metab Eng 24(), 2014
PMID: 24747046
Protein expression in Pichia pastoris: recent achievements and perspectives for heterologous protein production.
Ahmad M, Hirz M, Pichler H, Schwab H., Appl Microbiol Biotechnol 98(12), 2014
PMID: 24743983
Improving functional annotation for industrial microbes: a case study with Pichia pastoris.
Dikicioglu D, Wood V, Rutherford KM, McDowall MD, Oliver SG., Trends Biotechnol 32(8), 2014
PMID: 24929579
Complete genome sequence of the cellulolytic thermophile Ruminoclostridium cellulosi wild-type strain DG5 isolated from a thermophilic biogas plant.
Koeck DE, Wibberg D, Maus I, Winkler A, Albersmeier A, Zverlov VV, Zverlov VV, Liebl W, Pühler A, Schwarz WH, Schlüter A., J Biotechnol 188(), 2014
PMID: 25173616
Synergistic modular promoter and gene optimization to push cellulase secretion by Pichia pastoris beyond existing benchmarks.
Mellitzer A, Ruth C, Gustafsson C, Welch M, Birner-Grünberger R, Weis R, Purkarthofer T, Glieder A., J Biotechnol 191(), 2014
PMID: 25193713
Pichia pastoris Aft1--a novel transcription factor, enhancing recombinant protein secretion.
Ruth C, Buchetics M, Vidimce V, Kotz D, Naschberger S, Mattanovich D, Pichler H, Gasser B., Microb Cell Fact 13(), 2014
PMID: 25205197
Development of a hexahistidine-3× FLAG-tandem affinity purification method for endogenous protein complexes in Pichia pastoris.
Higo T, Suka N, Ehara H, Wakamori M, Sato S, Maeda H, Sekine S, Umehara T, Yokoyama S., J Struct Funct Genomics 15(4), 2014
PMID: 25398586
Lipidome and proteome of lipid droplets from the methylotrophic yeast Pichia pastoris.
Ivashov VA, Grillitsch K, Koefeler H, Leitner E, Baeumlisberger D, Karas M, Daum G., Biochim Biophys Acta 1831(2), 2013
PMID: 23041514
Biotechnology of non-Saccharomyces yeasts--the ascomycetes.
Johnson EA., Appl Microbiol Biotechnol 97(2), 2013
PMID: 23184219
Complete DNA sequence of Kuraishia capsulata illustrates novel genomic features among budding yeasts (Saccharomycotina).
Morales L, Noel B, Porcel B, Marcet-Houben M, Hullo MF, Sacerdot C, Tekaia F, Leh-Louis V, Despons L, Khanna V, Aury JM, Barbe V, Couloux A, Labadie K, Pelletier E, Souciet JL, Boekhout T, Gabaldon T, Wincker P, Dujon B., Genome Biol Evol 5(12), 2013
PMID: 24317973
Metabolic reconstruction and flux analysis of industrial Pichia yeasts.
Chung BK, Lakshmanan M, Klement M, Ching CB, Lee DY., Appl Microbiol Biotechnol 97(5), 2013
PMID: 23339015
Pichia pastoris: protein production host and model organism for biomedical research.
Gasser B, Prielhofer R, Marx H, Maurer M, Nocon J, Steiger M, Puxbaum V, Sauer M, Mattanovich D., Future Microbiol 8(2), 2013
PMID: 23374125
New opportunities by synthetic biology for biopharmaceutical production in Pichia pastoris.
Vogl T, Hartner FS, Glieder A., Curr Opin Biotechnol 24(6), 2013
PMID: 23522654
Identification of triacylglycerol and steryl ester synthases of the methylotrophic yeast Pichia pastoris.
Ivashov VA, Zellnig G, Grillitsch K, Daum G., Biochim Biophys Acta 1831(6), 2013
PMID: 23524242
The secretory pathway: exploring yeast diversity.
Delic M, Valli M, Graf AB, Pfeffer M, Mattanovich D, Gasser B., FEMS Microbiol Rev 37(6), 2013
PMID: 23480475
Complete genome sequence of the hydrogenotrophic Archaeon Methanobacterium sp. Mb1 isolated from a production-scale biogas plant.
Maus I, Wibberg D, Stantscheff R, Cibis K, Eikmeyer FG, König H, Pühler A, Schlüter A., J Biotechnol 168(4), 2013
PMID: 24184088
Knockout of an endogenous mannosyltransferase increases the homogeneity of glycoproteins produced in Pichia pastoris.
Krainer FW, Gmeiner C, Neutsch L, Windwarder M, Pletzenauer R, Herwig C, Altmann F, Glieder A, Spadiut O., Sci Rep 3(), 2013
PMID: 24252857
Genome sequence and analysis of methylotrophic yeast Hansenula polymorpha DL1.
Ravin NV, Eldarov MA, Kadnikov VV, Beletsky AV, Schneider J, Mardanova ES, Smekalova EM, Zvereva MI, Dontsova OA, Mardanov AV, Skryabin KG., BMC Genomics 14(), 2013
PMID: 24279325
Protein secretion in Pichia pastoris and advances in protein production.
Damasceno LM, Huang CJ, Batt CA., Appl Microbiol Biotechnol 93(1), 2012
PMID: 22057543
Mitochondrial genomes of yeasts of the Yarrowia clade.
Gaillardin C, Neuvéglise C, Kerscher S, Nicaud JM., FEMS Yeast Res 12(3), 2012
PMID: 22188421
Recombinant protein expression in Pichia pastoris strains with an engineered methanol utilization pathway.
Krainer FW, Dietzsch C, Hajek T, Herwig C, Spadiut O, Glieder A., Microb Cell Fact 11(), 2012
PMID: 22330134
Deletion of the Pichia pastoris KU70 homologue facilitates platform strain generation for gene expression and synthetic biology.
Näätsaari L, Mistlberger B, Ruth C, Hajek T, Hartner FS, Glieder A., PLoS One 7(6), 2012
PMID: 22768112

Export

Markieren/ Markierung löschen
Markierte Publikationen

Open Data PUB

Web of Science

Dieser Datensatz im Web of Science®

Quellen

PMID: 21575661
PubMed | Europe PMC

Suchen in

Google Scholar