Author Report for: Archer DBNo contact information in database for Archer DB
de Vries RP, Riley R, Wiebenga A, Aguilar-Osorio G, Amillis S, Uchima CA, Anderluh G, Asadollahi M, Askin M and Grigoriev IV <107 more author(s)> de Vries RP, Riley R, Wiebenga A, Aguilar-Osorio G, Amillis S, Uchima CA, Anderluh G, Asadollahi M, Askin M, Barry K, Battaglia E, Bayram O, Benocci T, Braus-Stromeyer SA, Caldana C, Canovas D, Cerqueira GC, Chen F, Chen W, Choi C, Clum A, Dos Santos RA, Damasio AR, Diallinas G, Emri T, Fekete E, Flipphi M, Freyberg S, Gallo A, Gournas C, Habgood R, Hainaut M, Harispe ML, Henrissat B, Hilden KS, Hope R, Hossain A, Karabika E, Karaffa L, Karanyi Z, Krasevec N, Kuo A, Kusch H, LaButti K, Lagendijk EL, Lapidus A, Levasseur A, Lindquist E, Lipzen A, Logrieco AF, Maccabe A, Makela MR, Malavazi I, Melin P, Meyer V, Mielnichuk N, Miskei M, Molnar AP, Mule G, Ngan CY, Orejas M, Orosz E, Ouedraogo JP, Overkamp KM, Park HS, Perrone G, Piumi F, Punt PJ, Ram AF, Ramon A, Rauscher S, Record E, Riano-Pachon DM, Robert V, Rohrig J, Ruller R, Salamov A, Salih NS, Samson RA, Sandor E, Sanguinetti M, Schutze T, Sepcic K, Shelest E, Sherlock G, Sophianopoulou V, Squina FM, Sun H, Susca A, Todd RB, Tsang A, Unkles SE, van de Wiele N, van Rossen-Uffink D, Oliveira JV, Vesth TC, Visser J, Yu JH, Zhou M, Andersen MR, Archer DB, Baker SE, Benoit I, Brakhage AA, Braus GH, Fischer R, Frisvad JC, Goldman GH, Houbraken J, Oakley B, Pocsi I, Scazzocchio C, Seiboth B, vanKuyk PA, Wortman J, Dyer PS, Grigoriev IV (- 107) Ref: Genome Biol, 18:28, 2017 : PubMed ESTHER: de Vries_2017_Genome.Biol_18_28 PubMedSearch: de Vries 2017 Genome.Biol 18 28 PubMedID: 28196534 Gene_locus related to this paper: asptu-a0a1l9nhd0, aspve-a0a1l9pxx8, aspve-a0a1l9q4m3, aspwe-a0a1l9s133, 9euro-a0a1l9t3v9, aspwe-a0a1l9rcx6, aspna-g3y5a6, aspgl-a0a1l9v4d3, 9euro-a0a1l9sa36, aspsb-a0a319eji6, aspve-a0a1l9px96, 9euro-a0a1l9tay1, aspgl-a0a1l9vbc0, aspc5-a0a1r3rh65, 9euro-a0a2v5i956, aspwe-a0a1l9rpp6, aspna-g3xpw9, aspve-a0a1l9plv1, 9euro-a0a1l9tk47, aspve-a0a1l9pde9, aspve-a0a1l9pz72, aspwe-a0a1l9rde6, 9euro-a0a1l9tdb5, aspkw-g7xq95, aspbc-a0a1l9u6h4, aspbc-a0a1l9u2l4, asptc-a0a1l9mx83, aspgl-a0a1l9ve90, aspve-a0a1l9pvz9, 9euro-a0a1l9tdh3, aspc5-a0a1r3rmn9, aspwe-a0a1l9rlq2, asptc-a0a1l9nby7, aspng-a0a100i8t9, aspc5-a0a1r3rem6, aspbc-a0a1l9uy89, aspa1-anee, aspa1-aneh, aspa1-acrc, aspbc-alba, aspa1-acui Abstract BACKGROUND: The fungal genus Aspergillus is of critical importance to humankind. Species include those with industrial applications, important pathogens of humans, animals and crops, a source of potent carcinogenic contaminants of food, and an important genetic model. The genome sequences of eight aspergilli have already been explored to investigate aspects of fungal biology, raising questions about evolution and specialization within this genus. RESULTS: We have generated genome sequences for ten novel, highly diverse Aspergillus species and compared these in detail to sister and more distant genera. Comparative studies of key aspects of fungal biology, including primary and secondary metabolism, stress response, biomass degradation, and signal transduction, revealed both conservation and diversity among the species. Observed genomic differences were validated with experimental studies. This revealed several highlights, such as the potential for sex in asexual species, organic acid production genes being a key feature of black aspergilli, alternative approaches for degrading plant biomass, and indications for the genetic basis of stress response. A genome-wide phylogenetic analysis demonstrated in detail the relationship of the newly genome sequenced species with other aspergilli. CONCLUSIONS: Many aspects of biological differences between fungal species cannot be explained by current knowledge obtained from genome sequences. The comparative genomics and experimental study, presented here, allows for the first time a genus-wide view of the biological diversity of the aspergilli and in many, but not all, cases linked genome differences to phenotype. Insights gained could be exploited for biotechnological and medical applications of fungi. Title: Genome sequencing and analysis of the versatile cell factory Aspergillus niger CBS 513.88 Pel HJ, de Winde JH, Archer DB, Dyer PS, Hofmann G, Schaap PJ, Turner G, de Vries RP, Albang R and Stam H <59 more author(s)> Pel HJ, de Winde JH, Archer DB, Dyer PS, Hofmann G, Schaap PJ, Turner G, de Vries RP, Albang R, Albermann K, Andersen MR, Bendtsen JD, Benen JA, van den Berg M, Breestraat S, Caddick MX, Contreras R, Cornell M, Coutinho PM, Danchin EG, Debets AJ, Dekker P, van Dijck PW, van Dijk A, Dijkhuizen L, Driessen AJ, d'Enfert C, Geysens S, Goosen C, Groot GS, de Groot PW, Guillemette T, Henrissat B, Herweijer M, van den Hombergh JP, van den Hondel CA, van der Heijden RT, van der Kaaij RM, Klis FM, Kools HJ, Kubicek CP, van Kuyk PA, Lauber J, Lu X, van der Maarel MJ, Meulenberg R, Menke H, Mortimer MA, Nielsen J, Oliver SG, Olsthoorn M, Pal K, van Peij NN, Ram AF, Rinas U, Roubos JA, Sagt CM, Schmoll M, Sun J, Ussery D, Varga J, Vervecken W, van de Vondervoort PJ, Wedler H, Wosten HA, Zeng AP, van Ooyen AJ, Visser J, Stam H (- 59) Ref: Nat Biotechnol, 25:221, 2007 : PubMed ESTHER: Pel_2007_Nat.Biotechnol_25_221 PubMedSearch: Pel 2007 Nat.Biotechnol 25 221 PubMedID: 17259976 Gene_locus related to this paper: aspna-g3yal2, aspnc-a2q8r7, aspnc-a2q814, aspnc-a2qb93, aspnc-a2qbd3, aspnc-a2qbh3, aspnc-a2qbx7, aspnc-a2qdj6, aspnc-a2qe77, aspnc-a2qf54, aspnc-a2qfe9, aspnc-a2qg33, aspnc-a2qgj6, aspnc-a2qgm6, aspnc-a2qh52, aspnc-a2qh76, aspnc-a2qh85, aspnc-a2qhe2, aspnc-a2qi32, aspnc-a2qib2, aspnc-a2qk14, aspnc-a2ql23, aspnc-a2ql89, aspnc-a2ql90, aspnc-a2qla0, aspnc-a2qlz0, aspnc-a2qm14, aspnc-a2qmk5, aspnc-a2qms0, aspnc-a2qn29, aspnc-a2qn56, aspnc-a2qn70, aspnc-a2qnw9, aspnc-a2qr21, aspnc-a2qs22, aspnc-a2qt50, aspnc-a2qti9, aspnc-a2qtz0, aspnc-a2quc1, aspnc-a2qw06, aspnc-a2qwz6, aspnc-a2qx92, aspnc-a2qyf0, aspnc-a2qys7, aspnc-a2qz72, aspnc-a2qzn6, aspnc-a2qzr0, aspnc-a2qzs1, aspnc-a2qzx0, aspnc-a2qzx4, aspnc-a2r0p4, aspnc-a2r0u0, aspnc-a2r1p3, aspnc-a2r1r5, aspnc-a2r2i5, aspnc-a2r2l0, aspnc-a2r3s8, aspnc-a2r4c0, aspnc-a2r4j8, aspnc-a2r5r4, aspnc-a2r6g3, aspnc-a2r6h5, aspnc-a2r6h8, aspnc-a2r7q1, aspnc-a2r8r3, aspnc-a2r8z3, aspnc-a2r9y8, aspnc-a2r032, aspnc-a2r040, aspnc-a2r273, aspnc-a2r496, aspnc-a2r502, aspnc-a2ra07, aspnc-a2rap4, aspnc-a2raq2, aspnc-a2rav1, aspnc-a5aaf4, aspnc-a5ab63, aspnc-a5abc6, aspnc-a5abe5, aspnc-a5abe8, aspnc-a5abf0, aspnc-a5abh9, aspnc-a5abk1, aspnc-a5abt2, aspnc-a5abz1, aspnc-atg15, aspnc-axe1, aspnc-cuti1, aspnc-cuti2, aspnc-faec, aspng-a2q8w0, aspng-a2qs46, aspng-a2qst4, aspng-a2qv27, aspng-a2qzk9, aspng-a2r0p8, aspng-a2r225, aspng-DAPB, aspng-DPP5, aspng-faeb, aspni-APSC, aspni-EstA, aspni-FAEA, aspni-PAPA, aspkw-g7y0v7, aspnc-a2qt47, aspnc-a2qt66, aspnc-a2r199, aspnc-a2r871, aspnc-a2qbp6, aspnc-a2qqa1, aspnc-a2qt70, aspna-g3y5a6, aspna-g3xpw9, aspnc-a2qw57, aspaw-a0a401kcz4, aspna-alba, aspnc-kex1, aspnc-cbpya, aspnc-a2qbg8 Abstract The filamentous fungus Aspergillus niger is widely exploited by the fermentation industry for the production of enzymes and organic acids, particularly citric acid. We sequenced the 33.9-megabase genome of A. niger CBS 513.88, the ancestor of currently used enzyme production strains. A high level of synteny was observed with other aspergilli sequenced. Strong function predictions were made for 6,506 of the 14,165 open reading frames identified. A detailed description of the components of the protein secretion pathway was made and striking differences in the hydrolytic enzyme spectra of aspergilli were observed. A reconstructed metabolic network comprising 1,069 unique reactions illustrates the versatile metabolism of A. niger. Noteworthy is the large number of major facilitator superfamily transporters and fungal zinc binuclear cluster transcription factors, and the presence of putative gene clusters for fumonisin and ochratoxin A synthesis. Title: Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae Galagan JE, Calvo SE, Cuomo C, Ma LJ, Wortman JR, Batzoglou S, Lee SI, Basturkmen M, Spevak CC and Birren BW <40 more author(s)> Galagan JE, Calvo SE, Cuomo C, Ma LJ, Wortman JR, Batzoglou S, Lee SI, Basturkmen M, Spevak CC, Clutterbuck J, Kapitonov V, Jurka J, Scazzocchio C, Farman M, Butler J, Purcell S, Harris S, Braus GH, Draht O, Busch S, d'Enfert C, Bouchier C, Goldman GH, Bell-Pedersen D, Griffiths-Jones S, Doonan JH, Yu J, Vienken K, Pain A, Freitag M, Selker EU, Archer DB, Penalva MA, Oakley BR, Momany M, Tanaka T, Kumagai T, Asai K, Machida M, Nierman WC, Denning DW, Caddick M, Hynes M, Paoletti M, Fischer R, Miller B, Dyer P, Sachs MS, Osmani SA, Birren BW (- 40) Ref: Nature, 438:1105, 2005 : PubMed ESTHER: Galagan_2005_Nature_438_1105 PubMedSearch: Galagan 2005 Nature 438 1105 PubMedID: 16372000 Gene_locus related to this paper: emeni-axe1, emeni-BST1, emeni-c8vrl3, emeni-CUTI3, emeni-faec, emeni-ppme1, emeni-q5aqv0, emeni-q5ara9, emeni-q5av79, emeni-q5avd3, emeni-q5awc7, emeni-q5awq3, emeni-q5awu9, emeni-q5aww7, emeni-q5ax50, emeni-q5ay37, emeni-q5ay57, emeni-q5ayk9, emeni-q5az32, emeni-q5azl2, emeni-q5azp1, emeni-q5b1v2, emeni-q5b2c1, emeni-q5b3d2, emeni-q5b5j7, emeni-q5b7i6, emeni-q5b8p6, emeni-q5b9e7, emeni-q5b246, emeni-q5b446, emeni-q5b602, emeni-q5b938, emeni-q5ba78, emeni-q5bad3, emeni-q5bar0, emeni-q5bcd1, emeni-q5bcd2, emeni-q5bcf8, emeni-q5bdr0, emeni-q5beh9, emeni-q5bgk7, emeni-q7si80, emeni-q5bdv9, emeni-c8vu15, 9euro-a0a3d8t644, emeni-q5b719, emeni-q5ax97, emeni-tdia, emeni-afoc, emeni-dbae Abstract The aspergilli comprise a diverse group of filamentous fungi spanning over 200 million years of evolution. Here we report the genome sequence of the model organism Aspergillus nidulans, and a comparative study with Aspergillus fumigatus, a serious human pathogen, and Aspergillus oryzae, used in the production of sake, miso and soy sauce. Our analysis of genome structure provided a quantitative evaluation of forces driving long-term eukaryotic genome evolution. It also led to an experimentally validated model of mating-type locus evolution, suggesting the potential for sexual reproduction in A. fumigatus and A. oryzae. Our analysis of sequence conservation revealed over 5,000 non-coding regions actively conserved across all three species. Within these regions, we identified potential functional elements including a previously uncharacterized TPP riboswitch and motifs suggesting regulation in filamentous fungi by Puf family genes. We further obtained comparative and experimental evidence indicating widespread translational regulation by upstream open reading frames. These results enhance our understanding of these widely studied fungi as well as provide new insight into eukaryotic genome evolution and gene regulation. Title: Genome sequencing and analysis of Aspergillus oryzae Machida M, Asai K, Sano M, Tanaka T, Kumagai T, Terai G, Kusumoto K, Arima T, Akita O and Kikuchi H <54 more author(s)> Machida M, Asai K, Sano M, Tanaka T, Kumagai T, Terai G, Kusumoto K, Arima T, Akita O, Kashiwagi Y, Abe K, Gomi K, Horiuchi H, Kitamoto K, Kobayashi T, Takeuchi M, Denning DW, Galagan JE, Nierman WC, Yu J, Archer DB, Bennett JW, Bhatnagar D, Cleveland TE, Fedorova ND, Gotoh O, Horikawa H, Hosoyama A, Ichinomiya M, Igarashi R, Iwashita K, Juvvadi PR, Kato M, Kato Y, Kin T, Kokubun A, Maeda H, Maeyama N, Maruyama J, Nagasaki H, Nakajima T, Oda K, Okada K, Paulsen I, Sakamoto K, Sawano T, Takahashi M, Takase K, Terabayashi Y, Wortman JR, Yamada O, Yamagata Y, Anazawa H, Hata Y, Koide Y, Komori T, Koyama Y, Minetoki T, Suharnan S, Tanaka A, Isono K, Kuhara S, Ogasawara N, Kikuchi H (- 54) Ref: Nature, 438:1157, 2005 : PubMed ESTHER: Machida_2005_Nature_438_1157 PubMedSearch: Machida 2005 Nature 438 1157 PubMedID: 16372010 Gene_locus related to this paper: aspor-Q2U722, aspfn-b8mvx2, aspfn-b8mwk1, aspfn-b8n1a4, aspfn-b8n5l3, aspfn-b8n7y0, aspfn-b8n829, aspfn-b8ncj5, aspfn-b8nhj9, aspfn-b8njx6, aspfn-b8nsk2, aspfu-q4wj61, aspor-axe1, aspor-CPI, aspor-cutas, aspor-cuti2, aspor-DPPIV, aspor-faec, aspor-MDLB, aspor-ppme1, aspor-q2tw11, aspor-q2tw16, aspor-q2tw28, aspor-q2twc4, aspor-q2twg0, aspor-q2twj3, aspor-q2twv2, aspor-q2twv4, aspor-q2tx21, aspor-q2txq8, aspor-q2tya1, aspor-q2tyh6, aspor-q2tyn9, aspor-q2typ0, aspor-q2tyq4, aspor-q2tyv8, aspor-q2tz03, aspor-q2tzh3, aspor-q2tzr5, aspor-q2tzv9, aspor-q2u0k7, aspor-q2u0q2, aspor-q2u0r6, aspor-q2u1a5, aspor-q2u1a6, aspor-q2u1k0, aspor-q2u1k8, aspor-q2u1m8, aspor-q2u2a1, aspor-q2u2a4, aspor-q2u3a3, aspor-q2u3a6, aspor-q2u3k5, aspor-q2u3l6, aspor-q2u4a0, aspor-q2u4e0, aspor-q2u4f6, aspor-q2u4g6, aspor-q2u4h9, aspor-q2u4w9, aspor-q2u4y8, aspor-q2u5f5, aspor-q2u5n3, aspor-q2u5y8, aspor-q2u6h7, aspor-q2u6j5, aspor-q2u6m8, aspor-q2u6m9, aspor-q2u6n6, aspor-q2u7i2, aspor-q2u7v0, aspor-q2u8j8, aspor-q2u8r1, aspor-q2u8r4, aspor-q2u8t5, aspor-q2u8z3, aspor-q2u9a1, aspor-q2u9n5, aspor-q2u144, aspor-q2u161, aspor-q2u185, aspor-q2u199, aspor-q2u212, aspor-q2u331, aspor-q2u348, aspor-q2u400, aspor-q2u453, aspor-q2u489, aspor-q2u704, aspor-q2u728, aspor-q2u798, aspor-q2u822, aspor-q2u854, aspor-q2u875, aspor-q2u908, aspor-q2ua10, aspor-q2ua48, aspor-q2uab6, aspor-q2uak9, aspor-q2uaq4, aspor-q2ub32, aspor-q2ub76, aspor-q2uba1, aspor-q2ubd6, aspor-q2ubm2, aspor-q2ubr2, aspor-q2uc28, aspor-q2uc65, aspor-q2uc77, aspor-q2uc98, aspor-q2uck0, aspor-q2ucy7, aspor-q2ud03, aspor-q2ud06, aspor-q2ud08, aspor-q2ud23, aspor-q2udn5, aspor-q2udr0, aspor-q2uec1, aspor-q2uef3, aspor-q2uf10, aspor-q2uf27, aspor-q2uf48, aspor-q2ufd8, aspor-q2ufe5, aspor-q2ufm4, aspor-q2ufr3, aspor-q2ufz8, aspor-q2ug78, aspor-q2ugd6, aspor-q2uge1, aspor-q2ugg7, aspor-q2ugi2, aspor-q2ugl2, aspor-q2ugy9, aspor-q2uh24, aspor-q2uh73, aspor-q2uhe4, aspor-q2uhf0, aspor-q2uhj6, aspor-q2uhn1, aspor-q2uhq0, aspor-q2ui56, aspor-q2uib2, aspor-q2uib5, aspor-q2uie9, aspor-q2uih1, aspor-q2uii1, aspor-q2uik9, aspor-q2uiq0, aspor-q2uiu1, aspor-q2uix9, aspor-q2uiy5, aspor-q2uiz4, aspor-q2uj89, aspor-q2uja2, aspor-q2uju3, aspor-q2uk31, aspor-q2uk42, aspor-q2ukb6, aspor-q2ukq7, aspor-q2ul81, aspor-q2uli9, aspor-q2ulr2, aspor-q2ulv7, aspor-q2umf3, aspor-q2umv2, aspor-q2umx6, aspor-q2unw5, aspor-q2up23, aspor-q2up89, aspor-q2upe6, aspor-q2upi1, aspor-q2upl1, aspor-q2upw4, aspor-q2uq56, aspor-q2uqb4, aspor-q2uqm7, aspor-q2ur58, aspor-q2ur64, aspor-q2ur80, aspor-q2ur83, aspor-q2ure7, aspor-q2urf3, aspor-q2urg5, aspor-q2urq0, aspor-q2urt4, aspor-q2uru5, aspor-q2usi0, aspor-q2usp7, aspor-q2usq8, aspor-q2usv6, aspor-q2uta5, aspor-q2uu89, aspor-q2uub4, aspor-q2uux8, aspor-q2uv29, aspor-TGLA, aspor-q2ue03, aspor-q2uj83, aspno-a0a0l1j1c9 Abstract The genome of Aspergillus oryzae, a fungus important for the production of traditional fermented foods and beverages in Japan, has been sequenced. The ability to secrete large amounts of proteins and the development of a transformation system have facilitated the use of A. oryzae in modern biotechnology. Although both A. oryzae and Aspergillus flavus belong to the section Flavi of the subgenus Circumdati of Aspergillus, A. oryzae, unlike A. flavus, does not produce aflatoxin, and its long history of use in the food industry has proved its safety. Here we show that the 37-megabase (Mb) genome of A. oryzae contains 12,074 genes and is expanded by 7-9 Mb in comparison with the genomes of Aspergillus nidulans and Aspergillus fumigatus. Comparison of the three aspergilli species revealed the presence of syntenic blocks and A. oryzae-specific blocks (lacking synteny with A. nidulans and A. fumigatus) in a mosaic manner throughout the genome of A. oryzae. The blocks of A. oryzae-specific sequence are enriched for genes involved in metabolism, particularly those for the synthesis of secondary metabolites. Specific expansion of genes for secretory hydrolytic enzymes, amino acid metabolism and amino acid/sugar uptake transporters supports the idea that A. oryzae is an ideal microorganism for fermentation. Title: Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus Nierman WC, Pain A, Anderson MJ, Wortman JR, Kim HS, Arroyo J, Berriman M, Abe K, Archer DB and Denning DW <87 more author(s)> Nierman WC, Pain A, Anderson MJ, Wortman JR, Kim HS, Arroyo J, Berriman M, Abe K, Archer DB, Bermejo C, Bennett J, Bowyer P, Chen D, Collins M, Coulsen R, Davies R, Dyer PS, Farman M, Fedorova N, Feldblyum TV, Fischer R, Fosker N, Fraser A, Garcia JL, Garcia MJ, Goble A, Goldman GH, Gomi K, Griffith-Jones S, Gwilliam R, Haas B, Haas H, Harris D, Horiuchi H, Huang J, Humphray S, Jimenez J, Keller N, Khouri H, Kitamoto K, Kobayashi T, Konzack S, Kulkarni R, Kumagai T, Lafon A, Latge JP, Li W, Lord A, Lu C, Majoros WH, May GS, Miller BL, Mohamoud Y, Molina M, Monod M, Mouyna I, Mulligan S, Murphy L, O'Neil S, Paulsen I, Penalva MA, Pertea M, Price C, Pritchard BL, Quail MA, Rabbinowitsch E, Rawlins N, Rajandream MA, Reichard U, Renauld H, Robson GD, Rodriguez de Cordoba S, Rodriguez-Pena JM, Ronning CM, Rutter S, Salzberg SL, Sanchez M, Sanchez-Ferrero JC, Saunders D, Seeger K, Squares R, Squares S, Takeuchi M, Tekaia F, Turner G, Vazquez de Aldana CR, Weidman J, White O, Woodward J, Yu JH, Fraser C, Galagan JE, Asai K, Machida M, Hall N, Barrell B, Denning DW (- 87) Ref: Nature, 438:1151, 2005 : PubMed ESTHER: Nierman_2005_Nature_438_1151 PubMedSearch: Nierman 2005 Nature 438 1151 PubMedID: 16372009 Gene_locus related to this paper: aspfc-b0xp50, aspfc-b0xu40, aspfc-b0xzj6, aspfc-dpp5, aspfu-apth1, aspfu-axe1, aspfu-CBPYA, aspfu-faec, aspfu-kex1, aspfu-ppme1, aspfu-q4wa39, aspfu-q4wa78, aspfu-q4wf56, aspfu-q4wg73, aspfu-q4wk44, aspfu-q4wkh6, aspfu-q4wnx3, aspfu-q4wpb9, aspfu-q4wqv2, aspfu-q4wub2, aspfu-q4wxr1, aspfu-q4x0n6, aspfu-q4x1n0, aspfu-q5vjg7, neofi-a1cwa6, neofi-a1dfr9, aspfm-a0a084bf80, aspfu-fmac Abstract Aspergillus fumigatus is exceptional among microorganisms in being both a primary and opportunistic pathogen as well as a major allergen. Its conidia production is prolific, and so human respiratory tract exposure is almost constant. A. fumigatus is isolated from human habitats and vegetable compost heaps. In immunocompromised individuals, the incidence of invasive infection can be as high as 50% and the mortality rate is often about 50% (ref. 2). The interaction of A. fumigatus and other airborne fungi with the immune system is increasingly linked to severe asthma and sinusitis. Although the burden of invasive disease caused by A. fumigatus is substantial, the basic biology of the organism is mostly obscure. Here we show the complete 29.4-megabase genome sequence of the clinical isolate Af293, which consists of eight chromosomes containing 9,926 predicted genes. Microarray analysis revealed temperature-dependent expression of distinct sets of genes, as well as 700 A. fumigatus genes not present or significantly diverged in the closely related sexual species Neosartorya fischeri, many of which may have roles in the pathogenicity phenotype. The Af293 genome sequence provides an unparalleled resource for the future understanding of this remarkable fungus. Title: Genomics reveals sexual secrets of Aspergillus Dyer PS, Paoletti M, Archer DB Ref: Microbiology, 149:2301, 2003 : PubMed ESTHER: Dyer_2003_Microbiology_149_2301 PubMedSearch: Dyer 2003 Microbiology 149 2301 PubMedID: 12949156 Gene_locus related to this paper: emeni-q7si80, emeni-q7si81 Title: A modular esterase from Penicillium funiculosum which releases ferulic acid from plant cell walls and binds crystalline cellulose contains a carbohydrate binding module Kroon PA, Williamson G, Fish NM, Archer DB, Belshaw NJ Ref: European Journal of Biochemistry, 267:6740, 2000 : PubMed ESTHER: Kroon_2000_Eur.J.Biochem_267_6740 PubMedSearch: Kroon 2000 Eur.J.Biochem 267 6740 PubMedID: 11082184 Gene_locus related to this paper: penfn-faeb Abstract An esterase was isolated from cultures of the filamentous fungus Penicillium funiculosum grown on sugar beet pulp as the sole carbon source. The enzyme (ferulic acid esterase B, FAEB) was shown to be a cinnamoyl esterase (CE), efficiently releasing hydroxycinnamic acids from synthetic ester substrates and plant cell walls, and bound strongly to microcrystalline cellulose. A gene fragment was obtained by PCR using partial amino-acid sequences obtained from the pure enzyme and used to a probe a P. funiculosum genomic DNA library. A clone containing a 1120-bp ORF, faeB, was obtained which encoded a putative 353-residue preprotein including an 18-residue signal peptide, which when expressed in Eschericia coli produced CE activity. Northern analysis showed that transcription of faeB was tightly regulated, being stimulated by growth of the fungus on sugar beet pulp but inhibited by free glucose. The faeB promoter sequence contains putative motifs for binding an activator protein, XLNR, and a carbon catabolite repressor protein, CREA. FAEB was comprised of two distinct domains separated by a 20 residue Thr/Ser/Pro linker region. The N-terminal domain comprised 276 amino acids, contained a G-X-S-X-G motif typical of serine esterases, and was shown to be a member of a family comprising serine esterases, including microbial acetyl xylan esterases, poly (3-hydroxyalkanoate) depolymerases and CEs, and proteins of unknown function from Mycobacterium spp. and plants. The C-terminal domain comprised 39 amino acids and closely resembled the family 1 cellulose binding carbohydrate-binding modules (CBM) of fungal glycosyl hydrolases. This is the first report of a fungal CE with a CBM. | |||||||
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