<I>Talaromyces Purpurogenus </I> and Related Species
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The Transcription Factor Tprfx1 Is an Essential Regulator of Amylase And
Liao et al. Biotechnol Biofuels (2018) 11:276 https://doi.org/10.1186/s13068-018-1276-8 Biotechnology for Biofuels RESEARCH Open Access The transcription factor TpRfx1 is an essential regulator of amylase and cellulase gene expression in Talaromyces pinophilus Gui‑Yan Liao†, Shuai Zhao*†, Ting Zhang, Cheng‑Xi Li, Lu‑Sheng Liao, Feng‑Fei Zhang, Xue‑Mei Luo and Jia‑Xun Feng* Abstract Background: Perfect and low cost of fungal amylolytic and cellulolytic enzymes are prerequisite for the industrializa‑ tion of plant biomass biorefnergy to biofuels. Genetic engineering of fungal strains based on regulatory network of transcriptional factors (TFs) and their targets is an efcient strategy to achieve the above described aim. Talaromyces pinophilus produces integrative amylolytic and cellulolytic enzymes; however, the regulatory mechanism associated with the expression of amylase and cellulase genes in T. pinophilus remains unclear. In this study, we screened for and identifed novel TFs regulating amylase and/or cellulase gene expression in T. pinophilus 1-95 through comparative transcriptomic and genetic analyses. Results: Comparative analysis of the transcriptomes from T. pinophilus 1-95 grown on media in the presence and absence of glucose or soluble starch as the sole carbon source screened 33 candidate TF-encoding genes that regu‑ late amylase gene expression. Thirty of the 33 genes were successfully knocked out in the parental strain T. pinophilus ∆TpKu70, with seven of the deletion mutants frstly displaying signifcant changes in amylase production as compared with the parental strain. Among these, ∆TpRfx1 (TpRfx1: Talaromyces pinophilus Rfx1) showed the most signifcant decrease (81.5%) in amylase production, as well as a 57.7% reduction in flter paper cellulase production. -
Phylogeny and Nomenclature of the Genus Talaromyces and Taxa Accommodated in Penicillium Subgenus Biverticillium
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Elsevier - Publisher Connector available online at www.studiesinmycology.org StudieS in Mycology 70: 159–183. 2011. doi:10.3114/sim.2011.70.04 Phylogeny and nomenclature of the genus Talaromyces and taxa accommodated in Penicillium subgenus Biverticillium R.A. Samson1, N. Yilmaz1,6, J. Houbraken1,6, H. Spierenburg1, K.A. Seifert2, S.W. Peterson3, J. Varga4 and J.C. Frisvad5 1CBS-KNAW Fungal Biodiversity Centre, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands; 2Biodiversity (Mycology), Eastern Cereal and Oilseed Research Centre, Agriculture & Agri-Food Canada, 960 Carling Ave., Ottawa, Ontario, K1A 0C6, Canada, 3Bacterial Foodborne Pathogens and Mycology Research Unit, National Center for Agricultural Utilization Research, 1815 N. University Street, Peoria, IL 61604, U.S.A., 4Department of Microbiology, Faculty of Science and Informatics, University of Szeged, H-6726 Szeged, Közép fasor 52, Hungary, 5Department of Systems Biology, Building 221, Technical University of Denmark, DK-2800, Kgs. Lyngby, Denmark; 6Microbiology, Department of Biology, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands. *Correspondence: R.A. Samson, [email protected] Abstract: The taxonomic history of anamorphic species attributed to Penicillium subgenus Biverticillium is reviewed, along with evidence supporting their relationship with teleomorphic species classified inTalaromyces. To supplement previous conclusions based on ITS, SSU and/or LSU sequencing that Talaromyces and subgenus Biverticillium comprise a monophyletic group that is distinct from Penicillium at the generic level, the phylogenetic relationships of these two groups with other genera of Trichocomaceae was further studied by sequencing a part of the RPB1 (RNA polymerase II largest subunit) gene. -
Species-Specific PCR to Describe Local-Scale Distributions of Four
fungal ecology 6 (2013) 419e429 available at www.sciencedirect.com journal homepage: www.elsevier.com/locate/funeco Species-specific PCR to describe local-scale distributions of four cryptic species in the Penicillium 5 chrysogenum complex Alexander G.P. BROWNE*, Matthew C. FISHER, Daniel A. HENK* Department of Infectious Disease Epidemiology, Imperial College London, London, United Kingdom article info abstract Article history: Penicillium chrysogenum is a ubiquitous airborne fungus detected in every sampled region of Received 2 October 2012 the Earth. Owing to its role in Alexander Fleming’s serendipitous discovery of Penicillin in Revision received 8 March 2013 1928, the fungus has generated widespread scientific interest; however its natural history is Accepted 13 March 2013 not well understood. Research has demonstrated speciation within P. chrysogenum, Available online 15 June 2013 describing the existence of four cryptic species. To discriminate the four species, we Corresponding editor: developed protocols for species-specific diagnostic PCR directly from fungal conidia. 430 Gareth W. Griffith Penicillium isolates were collected to apply our rapid diagnostic tool and explore the dis- tribution of these fungi across the London Underground rail transport system revealing Keywords: significant differences between Underground lines. Phylogenetic analysis of multiple type Alexander Fleming isolates confirms that the ‘Fleming species’ should be named Penicillium rubens and that London Underground divergence of the four ‘Chrysogenum complex’ fungi occurred about 0.75 million yr ago. Mycology Finally, the formal naming of two new species, Penicillium floreyi and Penicillium chainii,is Penicillium chrysogenum performed. Phylogeny ª 2013 The Authors. Published by Elsevier Ltd. All rights reserved. Taxonomy Introduction In Sep. -
Genome Sequencing and Analysis of Talaromyces Pinophilus Provide
www.nature.com/scientificreports OPEN Genome sequencing and analysis of Talaromyces pinophilus provide insights into biotechnological Received: 4 October 2016 Accepted: 3 March 2017 applications Published: xx xx xxxx Cheng-Xi Li, Shuai Zhao, Ting Zhang, Liang Xian, Lu-Sheng Liao, Jun-Liang Liu & Jia-Xun Feng Species from the genus Talaromyces produce useful biomass-degrading enzymes and secondary metabolites. However, these enzymes and secondary metabolites are still poorly understood and have not been explored in depth because of a lack of comprehensive genetic information. Here, we report a 36.51-megabase genome assembly of Talaromyces pinophilus strain 1–95, with coverage of nine scaffolds of eight chromosomes with telomeric repeats at their ends and circular mitochondrial DNA. In total, 13,472 protein-coding genes were predicted. Of these, 803 were annotated to encode enzymes that act on carbohydrates, including 39 cellulose-degrading and 24 starch-degrading enzymes. In addition, 68 secondary metabolism gene clusters were identified, mainly including T1 polyketide synthase genes and nonribosomal peptide synthase genes. Comparative genomic analyses revealed that T. pinophilus 1–95 harbors more biomass-degrading enzymes and secondary metabolites than other related filamentous fungi. The prediction of theT. pinophilus 1–95 secretome indicated that approximately 50% of the biomass-degrading enzymes are secreted into the extracellular environment. These results expanded our genetic knowledge of the biomass-degrading enzyme system of T. pinophilus and its biosynthesis of secondary metabolites, facilitating the cultivation of T. pinophilus for high production of useful products. Talaromyces pinophilus, formerly designated Penicillium pinophilum, is a fungus that produces biomass-degrading enzymes such as α-amylase1, cellulase2, endoglucanase3, xylanase2, laccase4 and α-galactosidase2. -
Recovery and Phylogenetic Diversity of Culturable Fungi Associated with Marine Sponges Clathrina Luteoculcitella and Holoxea Sp
Mar Biotechnol (2011) 13:713–721 DOI 10.1007/s10126-010-9333-8 ORIGINAL ARTICLE Recovery and Phylogenetic Diversity of Culturable Fungi Associated with Marine Sponges Clathrina luteoculcitella and Holoxea sp. in the South China Sea Bo Ding & Ying Yin & Fengli Zhang & Zhiyong Li Received: 8 December 2009 /Accepted: 29 October 2010 /Published online: 19 November 2010 # Springer Science+Business Media, LLC 2010 Abstract Sponge-associated fungi represent an important lated from sponge C. luteoculcitella only. Order Eurotiales source of marine natural products, but little is known about especially genera Penicillium, Aspergillus, and order the fungal diversity and the relationship of sponge–fungal Hypocreales represented the dominant culturable fungi in association, especially no research on the fungal diversity in these two South China Sea sponges. Nigrospora oryzae the South China Sea sponge has been reported. In this strain PF18 isolated from sponge C. luteoculcitella showed study, a total of 111 cultivable fungi strains were isolated a strong and broad spectrum antimicrobial activities from two South China Sea sponges Clathrina luteoculci- suggesting the potential for antimicrobial compounds tella and Holoxea sp. using eight different media. Thirty- production. two independent representatives were selected for analysis of phylogenetic diversity according to ARDRA and Keywords Marine sponge . Clathrina luteoculcitella . morphological characteristics. The culturable fungal com- Holoxea sp . Fungus . Phylogenetic diversity. Antimicrobial munities consisted of at least 17 genera within ten activity taxonomic orders of two phyla (nine orders of the phylum Ascomycota and one order of the phylum Basidiomycota) including some potential novel marine fungi. Particularly, Introduction eight genera of Apiospora, Botryosphaeria, Davidiella, Didymocrea, Lentomitella, Marasmius, Pestalotiopsis, and Marine fungi have been widely found in marine habitats, such Rhizomucor were isolated from sponge for the first time. -
Phylogeny and Nomenclature of the Genus Talaromyces and Taxa Accommodated in Penicillium Subgenus Biverticillium
available online at www.studiesinmycology.org StudieS in Mycology 70: 159–183. 2011. doi:10.3114/sim.2011.70.04 Phylogeny and nomenclature of the genus Talaromyces and taxa accommodated in Penicillium subgenus Biverticillium R.A. Samson1, N. Yilmaz1,6, J. Houbraken1,6, H. Spierenburg1, K.A. Seifert2, S.W. Peterson3, J. Varga4 and J.C. Frisvad5 1CBS-KNAW Fungal Biodiversity Centre, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands; 2Biodiversity (Mycology), Eastern Cereal and Oilseed Research Centre, Agriculture & Agri-Food Canada, 960 Carling Ave., Ottawa, Ontario, K1A 0C6, Canada, 3Bacterial Foodborne Pathogens and Mycology Research Unit, National Center for Agricultural Utilization Research, 1815 N. University Street, Peoria, IL 61604, U.S.A., 4Department of Microbiology, Faculty of Science and Informatics, University of Szeged, H-6726 Szeged, Közép fasor 52, Hungary, 5Department of Systems Biology, Building 221, Technical University of Denmark, DK-2800, Kgs. Lyngby, Denmark; 6Microbiology, Department of Biology, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands. *Correspondence: R.A. Samson, [email protected] Abstract: The taxonomic history of anamorphic species attributed to Penicillium subgenus Biverticillium is reviewed, along with evidence supporting their relationship with teleomorphic species classified inTalaromyces. To supplement previous conclusions based on ITS, SSU and/or LSU sequencing that Talaromyces and subgenus Biverticillium comprise a monophyletic group that is distinct from Penicillium at the generic level, the phylogenetic relationships of these two groups with other genera of Trichocomaceae was further studied by sequencing a part of the RPB1 (RNA polymerase II largest subunit) gene. Talaromyces species and most species of Penicillium subgenus Biverticillium sensu Pitt reside in a monophyletic clade distant from species of other subgenera of Penicillium. -
A Worldwide List of Endophytic Fungi with Notes on Ecology and Diversity
Mycosphere 10(1): 798–1079 (2019) www.mycosphere.org ISSN 2077 7019 Article Doi 10.5943/mycosphere/10/1/19 A worldwide list of endophytic fungi with notes on ecology and diversity Rashmi M, Kushveer JS and Sarma VV* Fungal Biotechnology Lab, Department of Biotechnology, School of Life Sciences, Pondicherry University, Kalapet, Pondicherry 605014, Puducherry, India Rashmi M, Kushveer JS, Sarma VV 2019 – A worldwide list of endophytic fungi with notes on ecology and diversity. Mycosphere 10(1), 798–1079, Doi 10.5943/mycosphere/10/1/19 Abstract Endophytic fungi are symptomless internal inhabits of plant tissues. They are implicated in the production of antibiotic and other compounds of therapeutic importance. Ecologically they provide several benefits to plants, including protection from plant pathogens. There have been numerous studies on the biodiversity and ecology of endophytic fungi. Some taxa dominate and occur frequently when compared to others due to adaptations or capabilities to produce different primary and secondary metabolites. It is therefore of interest to examine different fungal species and major taxonomic groups to which these fungi belong for bioactive compound production. In the present paper a list of endophytes based on the available literature is reported. More than 800 genera have been reported worldwide. Dominant genera are Alternaria, Aspergillus, Colletotrichum, Fusarium, Penicillium, and Phoma. Most endophyte studies have been on angiosperms followed by gymnosperms. Among the different substrates, leaf endophytes have been studied and analyzed in more detail when compared to other parts. Most investigations are from Asian countries such as China, India, European countries such as Germany, Spain and the UK in addition to major contributions from Brazil and the USA. -
Polyketides, Toxins and Pigments in Penicillium Marneffei
Toxins 2015, 7, 4421-4436; doi:10.3390/toxins7114421 OPEN ACCESS toxins ISSN 2072-6651 www.mdpi.com/journal/toxins Review Polyketides, Toxins and Pigments in Penicillium marneffei Emily W. T. Tam 1, Chi-Ching Tsang 1, Susanna K. P. Lau 1,2,3,4,* and Patrick C. Y. Woo 1,2,3,4,* 1 Department of Microbiology, The University of Hong Kong, Pokfulam, Hong Kong; E-Mails: [email protected] (E.W.T.T.); [email protected] (C.-C.T.) 2 State Key Laboratory of Emerging Infectious Diseases, The University of Hong Kong, Pokfulam, Hong Kong 3 Research Centre of Infection and Immunology, The University of Hong Kong, Pokfulam, Hong Kong 4 Carol Yu Centre for Infection, The University of Hong Kong, Pokfulam, Hong Kong * Authors to whom correspondence should be addressed; E-Mails: [email protected] (S.K.P.L.); [email protected] (P.C.Y.W.); Tel.: +852-2255-4892 (S.K.P.L. & P.C.Y.W.); Fax: +852-2855-1241 (S.K.P.L. & P.C.Y.W.). Academic Editor: Jiujiang Yu Received: 18 September 2015 / Accepted: 22 October 2015 / Published: 30 October 2015 Abstract: Penicillium marneffei (synonym: Talaromyces marneffei) is the most important pathogenic thermally dimorphic fungus in China and Southeastern Asia. The HIV/AIDS pandemic, particularly in China and other Southeast Asian countries, has led to the emergence of P. marneffei infection as an important AIDS-defining condition. Recently, we published the genome sequence of P. marneffei. In the P. marneffei genome, 23 polyketide synthase genes and two polyketide synthase-non-ribosomal peptide synthase hybrid genes were identified. -
Catabolism of Phenylacetic Acid in Penicillium Rubens. Proteome-Wide
Journal of Proteomics 187 (2018) 243–259 Contents lists available at ScienceDirect Journal of Proteomics journal homepage: www.elsevier.com/locate/jprot Catabolism of phenylacetic acid in Penicillium rubens. Proteome-wide analysis in response to the benzylpenicillin side chain precursor T ⁎ Mohammad-Saeid Jamia,b, Juan-Francisco Martínc, , Carlos Barreiroa, Rebeca Domínguez-Santosa,c, María-Fernanda Vasco-Cárdenasa,c, María Pascuala, ⁎⁎ Carlos García-Estradaa,d, a INBIOTEC, Instituto de Biotecnología de León, Avda. Real n°. 1, Parque Científico de León, 24006 León, Spain b Cellular and Molecular Research Center, Basic Health Sciences Institute, Shahrekord University of Medical Sciences, Shahrekord, Iran c Área de Microbiología, Departamento de Biología Molecular, Universidad de León, Campus de Vegazana s/n, 24071 León, Spain d Departamento de Ciencias Biomédicas, Facultad de Veterinaria, Universidad de León, Campus de Vegazana s/n, 24071 León, Spain ARTICLE INFO ABSTRACT Keywords: Biosynthesis of benzylpenicillin in filamentous fungi (e.g. Penicillium chrysogenum - renamed as Penicillium ru- Phenylacetic acid bens- and Aspergillus nidulans) depends on the addition of CoA-activated forms of phenylacetic acid to iso- Benzylpenicillin penicillin N. Phenylacetic acid is also detoxified by means of the homogentisate pathway, which begins with the 2-hydroxyphenylacetate hydroxylation of phenylacetic acid to 2-hydroxyphenylacetate in a reaction catalysed by the pahA-encoded Phenylacetate hydroxylase phenylacetate hydroxylase. This catabolic step has been tested in three different penicillin-producing strains of Proteomics P. rubens (P. notatum, P. chrysogenum NRRL 1951 and P. chrysogenum Wisconsin 54–1255) in the presence of Penicillium rubens sucrose and lactose as non-repressing carbon sources. P. chrysogenum Wisconsin 54–1255 was able to accumulate 2-hydroxyphenylacetate at late culture times. -
Prospects for Fungus Identification Using CO1 DNA Barcodes, with Penicillium As a Test Case
Prospects for fungus identification using CO1 DNA barcodes, with Penicillium as a test case Keith A. Seifert*†, Robert A. Samson‡, Jeremy R. deWaard§, Jos Houbraken‡, C. Andre´ Le´ vesque*, Jean-Marc Moncalvo¶, Gerry Louis-Seize*, and Paul D. N. Hebert§ *Biodiversity (Mycology and Botany), Environmental Sciences, Agriculture and Agri-Food Canada, Ottawa, ON, Canada K1A 0C6; ‡Fungal Biodiversity Centre, Centraalbureau voor Schimmelcultures, 3508 AD, Utrecht, The Netherlands; §Biodiversity Institute of Ontario, University of Guelph, Guelph, ON, Canada N1G 2W1; and ¶Department of Natural History, Royal Ontario Museum, and Department of Ecology and Evolutionary Biology, University of Toronto, Toronto, ON, Canada M5S 2C6 Communicated by Daniel H. Janzen, University of Pennsylvania, Philadelphia, PA, January 3, 2007 (received for review September 11, 2006) DNA barcoding systems employ a short, standardized gene region large ribosomal subunit (2), the internal transcribed spacer (ITS) to identify species. A 648-bp segment of mitochondrial cytochrome cistron (e.g., refs. 3 and 4), partial -tubulin A (BenA) gene c oxidase 1 (CO1) is the core barcode region for animals, but its sequences (5), or partial elongation factor 1-␣ (EF-1␣) se- utility has not been tested in fungi. This study began with an quences (6), and sometimes other protein-coding genes. examination of patterns of sequence divergences in this gene The concept of DNA barcoding proposes that effective, broad region for 38 fungal taxa with full CO1 sequences. Because these spectrum identification systems can be based on sequence results suggested that CO1 could be effective in species recogni- diversity in short, standardized gene regions (7–9). To date, this tion, we designed primers for a 545-bp fragment of CO1 and premise has been tested most extensively in the animal kingdom, generated sequences for multiple strains from 58 species of Pen- where a 648-bp region of the cytochrome c oxidase 1 (CO1) gene icillium subgenus Penicillium and 12 allied species. -
Plant Biomass-Acting Enzymes Produced by the Ascomycete Fungi Penicillium Subrubescens and Aspergillus Niger and Their Potential in Biotechnological Applications
Division of Microbiology and Biotechnology Department of Food and Environmental Sciences Faculty of Agriculture and Forestry University of Helsinki Plant biomass-acting enzymes produced by the ascomycete fungi Penicillium subrubescens and Aspergillus niger and their potential in biotechnological applications Sadegh Mansouri Doctoral Programme in Microbiology and Biotechnology ACADEMIC DISSERTATION To be presented, with the permission of the Faculty of Agriculture and Forestry of the University of Helsinki, for public examination in leture room B6, Latokartanonkaari 7, on October 27th 2017 at 12 o’clock noon. Helsinki 2017 Supervisors: Docent Kristiina S. Hildén Department of Food and Environmental Sciences University of Helsinki, Finland Docent Miia R. Mäkelä Department of Food and Environmental Sciences University of Helsinki, Finland Docent Pauliina Lankinen Department of Food and Environmental Sciences University of Helsinki, Finland Professor Annele Hatakka Department of Food and Environmental Sciences University of Helsinki, Finland Pre-examiners: Dr. Antti Nyyssölä VTT Technical Research Centre of Finland, Finland Dr. Kaisa Marjamaa VTT Technical Research Centre of Finland, Finland Opponent: Professor Martin Romantschuk Department of Environmental Sciences University of Helsinki, Finland Custos: Professor Maija Tenkanen Department of Food and Environmental Sciences University of Helsinki, Finland Dissertationes Schola Doctoralis Scientiae Circumiectalis, Alimentariae, Biologicae Cover: Penicillium subrubescens FBCC1632 on minimal medium amended with (upper row left to right) apple pectin, inulin, wheat bran, sugar beet pulp, (lower row left to right) citrus pulp, soybean hulls, cotton seed pulp or alfalfa meal (photos: Ronald de Vries). ISSN 2342-5423 (print) ISSN 2342-5431 (online) ISBN 978-951-51-3700-5 (paperback) ISBN 978-951-51-3701-2 (PDF) Unigrafia Helsinki 2017 Dedicated to my sweetheart wife and daughter Abstract Plant biomass contains complex polysaccharides that can be divided into structural and storage polysaccharides. -
Bioactive Compounds Produced by Strains of Penicillium and Talaromyces of Marine Origin
marine drugs Review Bioactive Compounds Produced by Strains of Penicillium and Talaromyces of Marine Origin Rosario Nicoletti 1,*,† and Antonio Trincone 2 1 Council for Agricultural Research and Agricultural Economy Analysis, Rome 00184, Italy 2 Institute of Biomolecular Chemistry, National Research Council, Pozzuoli 80078, Italy; [email protected] * Correspondence: [email protected]; Tel.: +39-081-253-9194 † Current address: Department of Agriculture, University of Naples “Federico II”, Portici 80055, Italy. Academic Editor: Orazio Taglialatela-Scafati Received: 23 December 2015; Accepted: 25 January 2016; Published: 18 February 2016 Abstract: In recent years, the search for novel natural compounds with bioactive properties has received a remarkable boost in view of their possible pharmaceutical exploitation. In this respect the sea is entitled to hold a prominent place, considering the potential of the manifold animals and plants interacting in this ecological context, which becomes even greater when their associated microbes are considered for bioprospecting. This is the case particularly of fungi, which have only recently started to be considered for their fundamental contribution to the biosynthetic potential of other more valued marine organisms. Also in this regard, strains of species which were previously considered typical terrestrial fungi, such as Penicillium and Talaromyces, disclose foreground relevance. This paper offers an overview of data published over the past 25 years concerning the production and biological activities of secondary metabolites of marine strains belonging to these genera, and their relevance as prospective drugs. Keywords: bioactive metabolites; chemodiversity; marine fungi; Penicillium; Talaromyces 1. Introduction For a long time fungi have been considered as a fundamentally terrestrial form of life.