PERFORM Publications

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Title		Authors	PubMed ID
1	Laboratory-scale simulation study on the bioremediation of marine oil pollution by phosphate-solubilizing bacteria Bacillus subtilis PSB-1	Du Z; Li Z; Chen X; Liu M; Feng L; Li Q; Chen Z; Chen Q;	41707285 ENCS
2	Synthesis and Acidic pH-Responsive Disassembly of Dual-Location Shell-Sheddable/Core-Degradable Block Copolymer Nanoassemblies and Their Controlled Drug Delivery	Andrade-Gagnon B; Casillas-Popova SN; Shamekhi M; Bairagi K; Peslherbe GH; Oh JK;	41524627 CHEMBIOCHEM
3	Stability of Acetals/Ketals Under Controlled Radical and Ring Opening Polymerization	Andrade-Gagnon B; Casillas-Popova SN; Oh JK;	40614241 CHEMBIOCHEM
4	Enhanced biodegradation of crude oil by phosphate-solubilizing bacteria Bacillus subtilis PSB-1: Overcoming soluble phosphorus deficiency	Wang X; Du Z; Li Z; Liu M; Mu J; Feng L; Chen Z; Chen Q;	40609441 ENCS
5	Application of machine learning for predicting the incubation period of water droplet erosion in metals	AlHammad K; Medraj M; Tembely M;	40612685 ENCS
6	Konjac glucomannan (KGM) aerogel immobilized microalgae: A new way for marine oil spills remediation	Wang X; Du Z; Song Z; Liu M; He P; Feng L; Chen Z; Chen Q;	40381443 ENCS
7	Photocatalytic innovations in PFAS removal: Emerging trends and advances	Tabatabaei M; Cho DW; Fahad S; Jeong DW; Hwang JH;	40315548 ENCS
8	Radiation tolerance and biodegradation performance of a marine bacterium Acinetobacter sp. Y9 in radioactive composite oil-contaminated wastewater	Yan J; Luo Q; Zhu B; Chen Z; Chen Q;	39806541 ENCS
9	Insights from multiple stable isotopes (C, N, Cl) into the photodegradation of herbicides atrazine and metolachlor	Levesque-Vargas M; Ohlund L; Sleno L; Gélinas Y; Höhener P; Ponsin V;	39716600 CHEMBIOCHEM
10	The degradation of polylactic acid face mask components in different environments	Lyu L; Bagchi M; Ng KTW; Markoglou N; Chowdhury R; An C; Chen Z; Yang X;	39378804 ENCS
11	pH-Responsive Degradable Electro-Spun Nanofibers Crosslinked via Boronic Ester Chemistry for Smart Wound Dressings	Casillas-Popova SN; Lokuge ND; Andrade-Gagnon B; Chowdhury FR; Skinner CD; Findlay BL; Oh JK;	38989606 BIOLOGY
12	Design, Synthesis, and Acid-Responsive Disassembly of Shell-Sheddable Block Copolymer Labeled with Benzaldehyde Acetal Junction	Andrade-Gagnon B; Casillas-Popova SN; Jazani AM; Oh JK;	38499007 CHEMBIOCHEM
13	Janus Micromotors for Photophoretic Motion and Photon Upconversion Applications Using a Single Near-Infrared Wavelength	Mena-Giraldo P; Kaur M; Maurizio SL; Mandl GA; Capobianco JA;	38197400 CHEMBIOCHEM
14	Effects of electron acceptors and donors on anaerobic biodegradation of PAHs in marine sediments	Chen Q; Li Z; Chen Y; Liu M; Yang Q; Zhu B; Mu J; Feng L; Chen Z;	38113802 ENCS
15	Towards environmentally sustainable management: A review on the generation, degradation, and recycling of polypropylene face mask waste	Lyu L; Bagchi M; Markoglou N; An C; Peng H; Bi H; Yang X; Sun H;	37742382 ENCS
16	Comparative Analysis of Enzyme Production Patterns of Lignocellulose Degradation of Two White Rot Fungi: Obba rivulosa and Gelatoporia subvermispora	Marinovíc M; Di Falco M; Aguilar Pontes MV; Gorzsás A; Tsang A; de Vries RP; Mäkelä MR; Hildén K;	35892327 CSFG
17	Perfluorocarbon Nanodroplets for Dual Delivery with Ultrasound/GSH-Responsive Release of Model Drug and Passive Release of Nitric Oxide	Choi M; Jazani AM; Oh JK; Noh SM;	35683912 CHEMBIOCHEM
18	Hypersaline Pore Water in Gulf of Mexico Beaches Prevented Efficient Biodegradation of Deepwater Horizon Beached Oil	Geng X; Khalil CA; Prince RC; Lee K; An C; Boufadel MC;	34617733 ENCS
19	Sustainable chemical processing of flowing wastewater through microwave energy	Siddique F; Mirzaei A; Gonzalez-Cortes S; Slocombe D; Al-Megren HA; Xiao T; Rafiq MA; Edwards PP;	34474383 PHYSICS
20	Kinetic and reaction mechanism of generated by-products in a photocatalytic oxidation reactor: Model development and validation	Malayeri M; Lee CS; Niu J; Zhu J; Haghighat F;	34182424 ENCS
21	Imidazole-Mediated Dual Location Disassembly of Acid-Degradable Intracellular Drug Delivery Block Copolymer Nanoassemblies	Jazani AM; Shetty C; Movasat H; Bawa KK; Oh JK;	34050688 CHEMBIOCHEM
22	Direct Polymerization Approach to Synthesize Acid-Degradable Block Copolymers Bearing Imine Pendants for Tunable pH-Sensitivity and Enhanced Release.	Hu X, Oh JK	32964550 CHEMBIOCHEM
23	Reduction-Responsive Sheddable Carbon Nanotubes Dispersed in Aqueous Solution.	An SY, Sun S, Oh JK	26890479 CNSR
24	Rab-Effector-Kinase Interplay Modulates Intralumenal Fragment Formation during Vacuole Fusion.	Karim MA, McNally EK, Samyn DR, Mattie S, Brett CL	30269949 BIOLOGY
25	Transcriptome and exoproteome analysis of utilization of plant-derived biomass by Myceliophthora thermophila.	Kolbusz MA, Di Falco M, Ishmael N, Marqueteau S, Moisan MC, Baptista CDS, Powlowski J, Tsang A	24881579 BIOLOGY
26	Closely related fungi employ diverse enzymatic strategies to degrade plant biomass.	Benoit I, Culleton H, Zhou M, DiFalco M, Aguilar-Osorio G, Battaglia E, Bouzid O, Brouwer CPJM, El-Bushari HBO, Coutinho PM, Gruben BS, Hildén KS, Houbraken J, Barboza LAJ, Levasseur A, Majoor E, Mäkelä MR, Narang HM, Trejo-Aguilar B, van den Brink J, vanKuyk PA, Wiebenga A, McKie V, McCleary B, Tsang A, Henrissat B, de Vries RP	26236396 CSFG
27	Expression-based clustering of CAZyme-encoding genes of Aspergillus niger.	Gruben BS, Mäkelä MR, Kowalczyk JE, Zhou M, Benoit-Gelber I, De Vries RP	29169319 CSFG
28	Genomic and exoproteomic diversity in plant biomass degradation approaches among Aspergilli	Mäkelä MR; DiFalco M; McDonnell E; Nguyen TTM; Wiebenga A; Hildén K; Peng M; Grigoriev IV; Tsang A; de Vries RP;	30487660 CSFG
29	The presence of trace components significantly broadens the molecular response of Aspergillus niger to guar gum.	Coconi Linares N, Di Falco M, Benoit-Gelber I, Gruben BS, Peng M, Tsang A, Mäkelä MR, de Vries RP	30797054 CSFG

Title:	The presence of trace components significantly broadens the molecular response of Aspergillus niger to guar gum.
Authors:	Coconi Linares N, Di Falco M, Benoit-Gelber I, Gruben BS, Peng M, Tsang A, Mäkelä MR, de Vries RP
Link:	https://www.ncbi.nlm.nih.gov/pubmed/30797054?dopt=Abstract
DOI:	10.1016/j.nbt.2019.02.005
Publication:	New biotechnology
Keywords:	Aspergillus niger; CAZymes; Exoproteome; Guar gum; Plant biomass degradation; Transcriptome;
PMID:	30797054	Category:	N Biotechnol	Date Added:	2019-06-07
Dept Affiliation:	CSFG 1 Fungal Physiology, Westerdijk Fungal Biodiversity Institute, Fungal Molecular Physiology, Utrecht University, Uppsalalaan 8, 3584 CT, Utrecht, the Netherlands. 2 Center for Structural and Functional Genomics, Concordia University, 7141 Sherbrooke Street West, Montreal, Quebec H4B 1R6, Canada. 3 Fungal Physiology, Westerdijk Fungal Biodiversity Institute, Fungal Molecular Physiology, Utrecht University, Uppsalalaan 8, 3584 CT, Utrecht, the Netherlands; Center for Structural and Functional Genomics, Concordia University, 7141 Sherbrooke Street West, Montreal, Quebec H4B 1R6, Canada; Microbiology, Utrecht University, Padualaan 8, 3584, CH, Utrecht, the Netherlands. 4 Fungal Physiology, Westerdijk Fungal Biodiversity Institute, Fungal Molecular Physiology, Utrecht University, Uppsalalaan 8, 3584 CT, Utrecht, the Netherlands; Microbiology, Utrecht University, Padualaan 8, 3584, CH, Utrecht, the Netherlands. 5 Fungal Physiology, Westerdijk Fungal Biodiversity Institute, Fungal Molecular Physiology, Utrecht University, Uppsalalaan 8, 3584 CT, Utrecht, the Netherlands; Department of Microbiology, P.O. Box 56, Viikinkaari 9, University of Helsinki, Helsinki, Finland. 6 Fungal Physiology, Westerdijk Fungal Biodiversity Institute, Fungal Molecular Physiology, Utrecht University, Uppsalalaan 8, 3584 CT, Utrecht, the Netherlands; Microbiology, Utrecht University, Padualaan 8, 3584, CH, Utrecht, the Netherlands. Electronic address: r.devries@westerdijkinstitute.nl.

Description:

The presence of trace components significantly broadens the molecular response of Aspergillus niger to guar gum.

N Biotechnol. 2019 Jul 25;51:57-66

Authors: Coconi Linares N, Di Falco M, Benoit-Gelber I, Gruben BS, Peng M, Tsang A, Mäkelä MR, de Vries RP

Abstract

Guar gum consists mainly of galactomannan and constitutes the endosperm of guar seeds that acts as a reserve polysaccharide for germination. Due to its molecular structure and physical properties, this biopolymer has been considered as one of the most important and widely used gums in industry. However, for many of these applications this (hemi-)cellulosic structure needs to be modified or (partially) depolymerized in order to customize and improve its physicochemical properties. In this study, transcriptome, exoproteome and enzyme activity analyses were employed to decipher the complete enzymatic arsenal for guar gum depolymerization by Aspergillus niger. This multi-omic analysis revealed a set of 46 genes encoding carbohydrate-active enzymes (CAZymes) responding to the presence of guar gum, including CAZymes not only with preferred activity towards galactomannan, but also towards (arabino-)xylan, cellulose, starch and pectin, likely due to trace components in guar gum. This demonstrates that the purity of substrates has a strong effect on the resulting enzyme mixture produced by A. niger and probably by other fungi as well, which has significant implications for the commercial production of fungal enzyme cocktails.

PMID: 30797054 [PubMed - indexed for MEDLINE]

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