Additional file 2: of GoldenPiCS: a Golden Gate-derived modular cloning system for applied synthetic biology in the yeast Pichia pastoris

Additional file 5: of Restriction site free cloning (RSFC) plasmid family for seamless, sequence independent cloning in Pichia pastoris

Thomas Vogl (125044)
Mudassar Ahmad (3572867)
Florian Krainer (3572864)
Helmut Schwab (517312)
Anton Glieder (154193)

July 2015

Table S1. Primers used in this study and detailed plasmid construction. Primers used for creating th...

Additional file 5: of Genome-wide replication landscape of Candida glabrata

StĂŠphane Descorps-DeclĂ¨re (3398636)
Cyril Saguez (2461765)
Axel Cournac (780868)
Martial Marbouty (3261618)
Thomas Rolland (261255)
Laurence Ma (253374)
Christiane Bouchier (85962)
Ivan Moszer (3437393)
Bernard Dujon (4555)
Romain Koszul (4890)
Guy-Franck Richard (4893)

September 2015

rDNA locus replication. Top: One tandem repeat unit of the S. cerevisiae rDNA locus on chromosome 12...

Additional file 2: of Genome-wide replication landscape of Candida glabrata

StĂŠphane Descorps-DeclĂ¨re (3398636)
Cyril Saguez (2461765)
Axel Cournac (780868)
Martial Marbouty (3261618)
Thomas Rolland (261255)
Laurence Ma (253374)
Christiane Bouchier (85962)
Ivan Moszer (3437393)
Bernard Dujon (4555)
Romain Koszul (4890)
Guy-Franck Richard (4893)

September 2015

Position and firing time of each replication origin, by chromosome. Coordinates are given according ...

Additional file 1: of GoldenPiCS: a Golden Gate-derived modular cloning system for applied synthetic biology in the yeast Pichia pastoris

Roland Prielhofer (3843370)
Juan Barrero (4673512)
Stefanie Steuer (4673515)
Thomas Gassler (4673518)
Richard Zahrl (4673521)
Kristin Baumann (2388355)
Michael Sauer (6797)
Diethard Mattanovich (6803)
Brigitte Gasser (6799)
Hans Marx (53249)

December 2017

File contains additional Tables S1-S3. Table S1. Gene copy numbers of four GOIs in three engineered ...

Additional file 2: Table S1. of Haploid yeast cells undergo a reversible phenotypic switch associated with chromosome II copy number

Polina Drozdova (3600995)
Ludmila Mironova (3600998)
Galina Zhouravleva (35656)

December 2016

Expression values for all genes in an Ispâ isolate (m2) relative to an Isp+ one (p2) and mean cove...

Additional file 6: of Identification of novel genes in the carotenogenic and oleaginous yeast Rhodotorula toruloides through genome-wide insertional mutagenesis

Yanbin Liu (231378)
Chong Koh (3493988)
Sihui Yap (3493991)
Minge Du (4874146)
Mya Hlaing (4874143)
Lianghui Ji (231384)

February 2018

Figure S3. T-DNA organizations in contructs used in this study. All binary vectors have the same pPZ...

Additional file 2: of Fission yeast type 2 node proteins Blt1p and Gef2p cooperate to ensure timely completion of cytokinesis

Lois Kwon (6262712)
Emma Magee (6262715)
Alexis Crayton (6262718)
John Goss (3822466)

January 2019

Rlc1p-mYFP recruitment to nodes and initiation of anaphase and telophase are normal in blt1∆, gef2∆,...

Additional file 2: of Precise cloning and tandem integration of large polyketide biosynthetic gene cluster using Streptomyces artificial chromosome system

Hee-Ju Nah (3479582)
Min-Woo Woo (3479579)
Si-Sun Choi (718264)
Eung-Soo Kim (718265)

September 2015

Figure S1. Confirmation of XbaI insertion in both flanking region of TMC biosynthetic gene cluster (...

Additional file 1: of CrEdit: CRISPR mediated multi-loci gene integration in Saccharomyces cerevisiae

Carlotta Ronda (3549401)
Jérôme Maury (2550037)
Tadas Jakočiu̅nas (3549407)
Simo Baallal Jacobsen (3549410)
Susanne Germann (3549404)
Scott Harrison (2116291)
Irina Borodina (349329)
Jay Keasling (272439)
Michael Jensen (215237)
Alex Nielsen (3453155)

July 2015

Figure S1. Showing efficiency of single step integration of the beta-carotenoid pathway in different...

AdditionalDataS3

Kuzmin, Elena
VanderSluis, Benjamin
Wang, Wen
Tan, Guihong
Deshpande, Raamesh
Chen, Yiqun
Usaj, Matej
Balint, Attila
Mattiazzi Usaj, Mojca
van Leeuwen, Jolanda
Koch, Elizabeth N.
Pons, Carles
Dagilis, Andrius Jonas
Pryszlak, Michael
Wang, Jason Zi Yang
Hanchard, Julia
Riggi, Margot
Xu, Kaicong
Heydari, Hamed
San Luis, Bryan-Joseph
Shuteriqi, Ermira
Zhu, Hongwei
Van Dyk, Nydia
Sharifpoor, Sara
Costanzo, Michael
Loewith, Robbie
Caudy, Amy
Bolnick, Daniel
Brown, Grant W.
Andrews, Brenda J.
Boone, Charles
Myers, Chad L.

May 2018

This file contains the complete list of yeast strains and plasmids that were used in this study. The...

Additional file 1 of Fusing an exonuclease with Cas9 enhances homologous recombination in Pichia pastoris

Kun Zhang (108291)
Xingpeng Duan (2614474)
Peng Cai (1423345)
Linhui Gao (13759863)
Xiaoyan Wu (235931)
Lun Yao (1455424)
Yongjin J. Zhou (3280320)

September 2022

Additional file 1: Table S1. Main plasmids used in the study. Table S2. Primers used in this study. ...

Additional file 5: Figure S4. of Functional characterization of thiolase-encoding genes from Xanthophyllomyces dendrorhous and their effects on carotenoid synthesis

Nicole Werner (2321296)
Melissa Gómez (3483224)
Marcelo Baeza (559622)
Víctor Cifuentes (3117372)
Jennifer Alcaíno (559618)

November 2016

Scheme of plasmids constructed in this work. Schematic representation of plasmids used for yeast tra...

Additional file 3: of Active recombinant Tol2 transposase for gene transfer and gene discovery applications

Jun Ni (68173)
Kirk Wangensteen (3401558)
David Nelsen (3401567)
Darius Balciunas (53921)
Kimberly Skuster (3401564)
Mark Urban (3401555)
Stephen Ekker (3401561)

March 2016

Colony counting numbers for in vitro integration assays. Colony numbers counted for the three indepe...

Additional file 2: of Comparative mitochondrial genomics of cryptophyte algae: gene shuffling and dynamic mobile genetic elements

Jong Kim (234077)
Hwan Yoon (3493268)
Gangman Yi (750563)
Woongghi Shin (750566)
John Archibald (3571538)

April 2018

Figure S2. Hairpin structures wih palindromic sequence in cryptophyte mitochondrial genomes. The non...

Additional file 2: of Application of the CRISPR/Cas9 system for modification of flower color in Torenia fournieri

Masahiro Nishihara (201402)
Atsumi Higuchi (6055562)
Aiko Watanabe (158801)
Keisuke Tasaki (6055565)

December 2018

The results of next-generation amplicon sequencing of cv. Crown Violet and nine genome-edited toreni...

Additional file 5: of Restriction site free cloning (RSFC) plasmid family for seamless, sequence independent cloning in Pichia pastoris

Thomas Vogl (125044)
Mudassar Ahmad (3572867)
Florian Krainer (3572864)
Helmut Schwab (517312)
Anton Glieder (154193)

July 2015

Table S1. Primers used in this study and detailed plasmid construction. Primers used for creating th...

Additional file 5: of Genome-wide replication landscape of Candida glabrata

StĂŠphane Descorps-DeclĂ¨re (3398636)
Cyril Saguez (2461765)
Axel Cournac (780868)
Martial Marbouty (3261618)
Thomas Rolland (261255)
Laurence Ma (253374)
Christiane Bouchier (85962)
Ivan Moszer (3437393)
Bernard Dujon (4555)
Romain Koszul (4890)
Guy-Franck Richard (4893)

September 2015

rDNA locus replication. Top: One tandem repeat unit of the S. cerevisiae rDNA locus on chromosome 12...

Additional file 2: of Genome-wide replication landscape of Candida glabrata

StĂŠphane Descorps-DeclĂ¨re (3398636)
Cyril Saguez (2461765)
Axel Cournac (780868)
Martial Marbouty (3261618)
Thomas Rolland (261255)
Laurence Ma (253374)
Christiane Bouchier (85962)
Ivan Moszer (3437393)
Bernard Dujon (4555)
Romain Koszul (4890)
Guy-Franck Richard (4893)

September 2015

Position and firing time of each replication origin, by chromosome. Coordinates are given according ...

Additional file 1: of GoldenPiCS: a Golden Gate-derived modular cloning system for applied synthetic biology in the yeast Pichia pastoris

Roland Prielhofer (3843370)
Juan Barrero (4673512)
Stefanie Steuer (4673515)
Thomas Gassler (4673518)
Richard Zahrl (4673521)
Kristin Baumann (2388355)
Michael Sauer (6797)
Diethard Mattanovich (6803)
Brigitte Gasser (6799)
Hans Marx (53249)

December 2017

File contains additional Tables S1-S3. Table S1. Gene copy numbers of four GOIs in three engineered ...

Additional file 2: Table S1. of Haploid yeast cells undergo a reversible phenotypic switch associated with chromosome II copy number

Polina Drozdova (3600995)
Ludmila Mironova (3600998)
Galina Zhouravleva (35656)

December 2016

Expression values for all genes in an Ispâ isolate (m2) relative to an Isp+ one (p2) and mean cove...

Additional file 6: of Identification of novel genes in the carotenogenic and oleaginous yeast Rhodotorula toruloides through genome-wide insertional mutagenesis

Yanbin Liu (231378)
Chong Koh (3493988)
Sihui Yap (3493991)
Minge Du (4874146)
Mya Hlaing (4874143)
Lianghui Ji (231384)

February 2018

Figure S3. T-DNA organizations in contructs used in this study. All binary vectors have the same pPZ...

Additional file 2: of Fission yeast type 2 node proteins Blt1p and Gef2p cooperate to ensure timely completion of cytokinesis

Lois Kwon (6262712)
Emma Magee (6262715)
Alexis Crayton (6262718)
John Goss (3822466)

January 2019

Rlc1p-mYFP recruitment to nodes and initiation of anaphase and telophase are normal in blt1∆, gef2∆,...

Additional file 2: of Precise cloning and tandem integration of large polyketide biosynthetic gene cluster using Streptomyces artificial chromosome system

Hee-Ju Nah (3479582)
Min-Woo Woo (3479579)
Si-Sun Choi (718264)
Eung-Soo Kim (718265)

September 2015

Figure S1. Confirmation of XbaI insertion in both flanking region of TMC biosynthetic gene cluster (...

Additional file 1: of CrEdit: CRISPR mediated multi-loci gene integration in Saccharomyces cerevisiae

Carlotta Ronda (3549401)
Jérôme Maury (2550037)
Tadas Jakočiu̅nas (3549407)
Simo Baallal Jacobsen (3549410)
Susanne Germann (3549404)
Scott Harrison (2116291)
Irina Borodina (349329)
Jay Keasling (272439)
Michael Jensen (215237)
Alex Nielsen (3453155)

July 2015

Figure S1. Showing efficiency of single step integration of the beta-carotenoid pathway in different...

AdditionalDataS3

Kuzmin, Elena
VanderSluis, Benjamin
Wang, Wen
Tan, Guihong
Deshpande, Raamesh
Chen, Yiqun
Usaj, Matej
Balint, Attila
Mattiazzi Usaj, Mojca
van Leeuwen, Jolanda
Koch, Elizabeth N.
Pons, Carles
Dagilis, Andrius Jonas
Pryszlak, Michael
Wang, Jason Zi Yang
Hanchard, Julia
Riggi, Margot
Xu, Kaicong
Heydari, Hamed
San Luis, Bryan-Joseph
Shuteriqi, Ermira
Zhu, Hongwei
Van Dyk, Nydia
Sharifpoor, Sara
Costanzo, Michael
Loewith, Robbie
Caudy, Amy
Bolnick, Daniel
Brown, Grant W.
Andrews, Brenda J.
Boone, Charles
Myers, Chad L.

May 2018

This file contains the complete list of yeast strains and plasmids that were used in this study. The...

Additional file 1 of Fusing an exonuclease with Cas9 enhances homologous recombination in Pichia pastoris

Kun Zhang (108291)
Xingpeng Duan (2614474)
Peng Cai (1423345)
Linhui Gao (13759863)
Xiaoyan Wu (235931)
Lun Yao (1455424)
Yongjin J. Zhou (3280320)

September 2022

Additional file 1: Table S1. Main plasmids used in the study. Table S2. Primers used in this study. ...

Additional file 5: Figure S4. of Functional characterization of thiolase-encoding genes from Xanthophyllomyces dendrorhous and their effects on carotenoid synthesis

Nicole Werner (2321296)
Melissa Gómez (3483224)
Marcelo Baeza (559622)
Víctor Cifuentes (3117372)
Jennifer Alcaíno (559618)

November 2016

Scheme of plasmids constructed in this work. Schematic representation of plasmids used for yeast tra...

Additional file 3: of Active recombinant Tol2 transposase for gene transfer and gene discovery applications

Jun Ni (68173)
Kirk Wangensteen (3401558)
David Nelsen (3401567)
Darius Balciunas (53921)
Kimberly Skuster (3401564)
Mark Urban (3401555)
Stephen Ekker (3401561)

March 2016

Colony counting numbers for in vitro integration assays. Colony numbers counted for the three indepe...

Additional file 2: of Comparative mitochondrial genomics of cryptophyte algae: gene shuffling and dynamic mobile genetic elements

Jong Kim (234077)
Hwan Yoon (3493268)
Gangman Yi (750563)
Woongghi Shin (750566)
John Archibald (3571538)

April 2018

Figure S2. Hairpin structures wih palindromic sequence in cryptophyte mitochondrial genomes. The non...

Additional file 2: of Application of the CRISPR/Cas9 system for modification of flower color in Torenia fournieri

Masahiro Nishihara (201402)
Atsumi Higuchi (6055562)
Aiko Watanabe (158801)
Keisuke Tasaki (6055565)

December 2018

The results of next-generation amplicon sequencing of cv. Crown Violet and nine genome-edited toreni...

Additional file 5: of Restriction site free cloning (RSFC) plasmid family for seamless, sequence independent cloning in Pichia pastoris

Thomas Vogl (125044)
Mudassar Ahmad (3572867)
Florian Krainer (3572864)
Helmut Schwab (517312)
Anton Glieder (154193)

July 2015

Table S1. Primers used in this study and detailed plasmid construction. Primers used for creating th...

Additional file 5: of Genome-wide replication landscape of Candida glabrata

StĂŠphane Descorps-DeclĂ¨re (3398636)
Cyril Saguez (2461765)
Axel Cournac (780868)
Martial Marbouty (3261618)
Thomas Rolland (261255)
Laurence Ma (253374)
Christiane Bouchier (85962)
Ivan Moszer (3437393)
Bernard Dujon (4555)
Romain Koszul (4890)
Guy-Franck Richard (4893)

September 2015

rDNA locus replication. Top: One tandem repeat unit of the S. cerevisiae rDNA locus on chromosome 12...

Additional file 2: of Genome-wide replication landscape of Candida glabrata

StĂŠphane Descorps-DeclĂ¨re (3398636)
Cyril Saguez (2461765)
Axel Cournac (780868)
Martial Marbouty (3261618)
Thomas Rolland (261255)
Laurence Ma (253374)
Christiane Bouchier (85962)
Ivan Moszer (3437393)
Bernard Dujon (4555)
Romain Koszul (4890)
Guy-Franck Richard (4893)

September 2015

Position and firing time of each replication origin, by chromosome. Coordinates are given according ...

Additional file 2: of GoldenPiCS: a Golden Gate-derived modular cloning system for applied synthetic biology in the yeast Pichia pastoris

Abstract

Extracted data

Additional file 2: of GoldenPiCS: a Golden Gate-derived modular cloning system for applied synthetic biology in the yeast Pichia pastoris

Abstract

Extracted data

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