Additional file 11: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Additional file 1: 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 S1. Optimization of transformation conditions. Unless indicated otherwise, the same volume (1...

Additional file 2: of Genomic profiling of fungal cell wall-interfering compounds: identification of a common gene signature

Raúl García (3455819)
Javier Botet (267289)
José Rodríguez-Peña (3455834)
Clara Bermejo (3455822)
Juan Ribas (3455831)
José Revuelta (3407243)
César Nombela (3455828)
Javier Arroyo (3455825)

September 2015

Saccharomyces cerevisiae mutant strains hypersensitive to Congo red, caspofungin and zymolyase class...

Additional file 1: of Genomic profiling of fungal cell wall-interfering compounds: identification of a common gene signature

Raúl García (3455819)
Javier Botet (267289)
José Rodríguez-Peña (3455834)
Clara Bermejo (3455822)
Juan Ribas (3455831)
José Revuelta (3407243)
César Nombela (3455828)
Javier Arroyo (3455825)

September 2015

Setting up of CAS, ZYM and CR hypersensitivity assays. Exponentially growing cells in YEPD medium of...

Additional file 12: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Figure S14. Growth inhibitory effects of BII Rafflesfungin against yeasts (a), Aspergillus species (...

Additional file 8: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Figure S10. Results of the LCMS analysis of the absolute configuration of BII-Rafflesfungin by Marfe...

Additional file 1: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Table S1. antiSMASH results (links) for publicly available full genome assemblies of Phoma sp. in NC...

Additional file 7: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Figure S9. Multiple sequence alignment of the two epimerization domains E1 and E2 from the BIIRfg_NR...

Additional file 9: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Figure S11. Multiple sequence alignment of the predicted AMP-dependent ligase for BII-Rafflesfungin ...

Additional file 10: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Figure S12. Multiple sequence alignment of the predicted Type II thioesterase (orf-a) along with the...

Additional file 6: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Figure S8. Phylogenetic tree analysis of the functional distribution of C domains using MEGA7 (Maxim...

Additional file 2: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Figure S1. Circular representation of the phylogenetic tree of protein coding marker beta-tubulin fo...

Additional file 5: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Table S2. HMMER search results against the HMM models of DCL, LCL, starter and dual type of C domain...

Additional file 4: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Figure S3. 1H NMR spectrum (DMSO-d6, 400 MHz) of BII-Rafflesfungin. Figure S4. 13C NMR spectrum (DMS...

Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Sinha, Swati
Nge, Choy-Eng
Leong, Chung Yan
Ng, Veronica
Crasta, Sharon
Goh, Falicia
Low, Kia-Ngee
Zhang, Huibin
Arumugam, Prakash
Lezhava, Alexander
Chen, Swaine L.
Kanagasundaram, Yoganathan
Ng, Siew Bee
Eisenhaber, Frank
Eisenhaber, Birgit
Mohammad Alfatah

January 2019

Background: Phomafungin is a recently reported broad spectrum antifungal compound but its biosynthet...

Additional file 8: of Secondary metabolite gene clusters in the entomopathogen fungus Metarhizium anisopliae: genome identification and patterns of expression in a cuticle infection model

Nicolau Sbaraini (631252)
Rafael Guedes (3475223)
FĂĄbio Andreis (3475253)
Ăngela Junges (3475256)
Guilherme de Morais (3475232)
Marilene Vainstein (3475226)
Ana de Vasconcelos (3475220)
Augusto Schrank (141891)

October 2016

The partially conserved cluster found in A. chrysogenum and species from the Arthroderma genus is pu...

Additional file 1: 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 S1. Optimization of transformation conditions. Unless indicated otherwise, the same volume (1...

Additional file 2: of Genomic profiling of fungal cell wall-interfering compounds: identification of a common gene signature

Raúl García (3455819)
Javier Botet (267289)
José Rodríguez-Peña (3455834)
Clara Bermejo (3455822)
Juan Ribas (3455831)
José Revuelta (3407243)
César Nombela (3455828)
Javier Arroyo (3455825)

September 2015

Saccharomyces cerevisiae mutant strains hypersensitive to Congo red, caspofungin and zymolyase class...

Additional file 1: of Genomic profiling of fungal cell wall-interfering compounds: identification of a common gene signature

Raúl García (3455819)
Javier Botet (267289)
José Rodríguez-Peña (3455834)
Clara Bermejo (3455822)
Juan Ribas (3455831)
José Revuelta (3407243)
César Nombela (3455828)
Javier Arroyo (3455825)

September 2015

Setting up of CAS, ZYM and CR hypersensitivity assays. Exponentially growing cells in YEPD medium of...

Additional file 12: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Figure S14. Growth inhibitory effects of BII Rafflesfungin against yeasts (a), Aspergillus species (...

Additional file 8: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Figure S10. Results of the LCMS analysis of the absolute configuration of BII-Rafflesfungin by Marfe...

Additional file 1: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Table S1. antiSMASH results (links) for publicly available full genome assemblies of Phoma sp. in NC...

Additional file 7: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Figure S9. Multiple sequence alignment of the two epimerization domains E1 and E2 from the BIIRfg_NR...

Additional file 9: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Figure S11. Multiple sequence alignment of the predicted AMP-dependent ligase for BII-Rafflesfungin ...

Additional file 10: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Figure S12. Multiple sequence alignment of the predicted Type II thioesterase (orf-a) along with the...

Additional file 6: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Figure S8. Phylogenetic tree analysis of the functional distribution of C domains using MEGA7 (Maxim...

Additional file 2: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Figure S1. Circular representation of the phylogenetic tree of protein coding marker beta-tubulin fo...

Additional file 5: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Table S2. HMMER search results against the HMM models of DCL, LCL, starter and dual type of C domain...

Additional file 4: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Swati Sinha (5225981)
Choy-Eng Nge (1701916)
Chung Leong (6701474)
Veronica Ng (6701477)
Sharon Crasta (6701480)
Mohammad Alfatah (4584019)
Falicia Goh (117265)
Kia-Ngee Low (6701483)
Huibin Zhang (5979632)
Prakash Arumugam (303310)
Alexander Lezhava (186379)
Swaine Chen (3453932)
Yoganathan Kanagasundaram (6701486)
Siew Ng (3523106)
Frank Eisenhaber (1700)
Birgit Eisenhaber (7248)

May 2019

Figure S3. 1H NMR spectrum (DMSO-d6, 400 MHz) of BII-Rafflesfungin. Figure S4. 13C NMR spectrum (DMS...

Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Sinha, Swati
Nge, Choy-Eng
Leong, Chung Yan
Ng, Veronica
Crasta, Sharon
Goh, Falicia
Low, Kia-Ngee
Zhang, Huibin
Arumugam, Prakash
Lezhava, Alexander
Chen, Swaine L.
Kanagasundaram, Yoganathan
Ng, Siew Bee
Eisenhaber, Frank
Eisenhaber, Birgit
Mohammad Alfatah

January 2019

Background: Phomafungin is a recently reported broad spectrum antifungal compound but its biosynthet...

Additional file 8: of Secondary metabolite gene clusters in the entomopathogen fungus Metarhizium anisopliae: genome identification and patterns of expression in a cuticle infection model

Nicolau Sbaraini (631252)
Rafael Guedes (3475223)
FĂĄbio Andreis (3475253)
Ăngela Junges (3475256)
Guilherme de Morais (3475232)
Marilene Vainstein (3475226)
Ana de Vasconcelos (3475220)
Augusto Schrank (141891)

October 2016

The partially conserved cluster found in A. chrysogenum and species from the Arthroderma genus is pu...

Additional file 1: 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 S1. Optimization of transformation conditions. Unless indicated otherwise, the same volume (1...

Additional file 2: of Genomic profiling of fungal cell wall-interfering compounds: identification of a common gene signature

Raúl García (3455819)
Javier Botet (267289)
José Rodríguez-Peña (3455834)
Clara Bermejo (3455822)
Juan Ribas (3455831)
José Revuelta (3407243)
César Nombela (3455828)
Javier Arroyo (3455825)

September 2015

Saccharomyces cerevisiae mutant strains hypersensitive to Congo red, caspofungin and zymolyase class...

Additional file 1: of Genomic profiling of fungal cell wall-interfering compounds: identification of a common gene signature

Raúl García (3455819)
Javier Botet (267289)
José Rodríguez-Peña (3455834)
Clara Bermejo (3455822)
Juan Ribas (3455831)
José Revuelta (3407243)
César Nombela (3455828)
Javier Arroyo (3455825)

September 2015

Setting up of CAS, ZYM and CR hypersensitivity assays. Exponentially growing cells in YEPD medium of...

Additional file 11: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Abstract

Extracted data

Additional file 11: of Genomics-driven discovery of a biosynthetic gene cluster required for the synthesis of BII-Rafflesfungin from the fungus Phoma sp. F3723

Abstract

Extracted data

Related items

Related items