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1.
BMC Biotechnol ; 21(1): 15, 2021 02 11.
Artigo em Inglês | MEDLINE | ID: mdl-33573639

RESUMO

BACKGROUND: CRISPR-Cas genome editing technologies have revolutionized biotechnological research particularly in functional genomics and synthetic biology. As an alternative to the most studied and well-developed CRISPR/Cas9, a new class 2 (type V) CRISPR-Cas system called Cpf1 has emerged as another versatile platform for precision genome modification in a wide range of organisms including filamentous fungi. RESULTS: In this study, we developed AMA1-based single CRISPR/Cpf1 expression vector that targets pyrG gene in Aspergillus aculeatus TBRC 277, a wild type filamentous fungus and potential enzyme-producing cell factory. The results showed that the Cpf1 codon optimized from Francisella tularensis subsp. novicida U112, FnCpf1, works efficiently to facilitate RNA-guided site-specific DNA cleavage. Specifically, we set up three different guide crRNAs targeting pyrG gene and demonstrated that FnCpf1 was able to induce site-specific double-strand breaks (DSBs) followed by an endogenous non-homologous end-joining (NHEJ) DNA repair pathway which caused insertions or deletions (indels) at these site-specific loci. CONCLUSIONS: The use of FnCpf1 as an alternative class II (type V) nuclease was reported for the first time in A. aculeatus TBRC 277 species. The CRISPR/Cpf1 system developed in this study highlights the feasibility of CRISPR/Cpf1 technology and could be envisioned to further increase the utility of the CRISPR/Cpf1 in facilitating strain improvements as well as functional genomics of filamentous fungi.


Assuntos
Aspergillus/genética , Sistemas CRISPR-Cas , Repetições Palindrômicas Curtas Agrupadas e Regularmente Espaçadas , Edição de Genes/métodos , Proteínas de Bactérias/genética , Endonucleases/genética , Francisella , Regulação Fúngica da Expressão Gênica , RNA Guia de Cinetoplastídeos
2.
BMC Microbiol ; 19(1): 144, 2019 06 27.
Artigo em Inglês | MEDLINE | ID: mdl-31248378

RESUMO

BACKGROUND: Due to the cave oligotrophic environment, this habitat presents a challenge for microorganisms to colonize and thrive. However, it has been well documented that microorganisms play important roles in cave development. Survival of microbes in this unique habitat likely involves a broad range of adaptive capabilities. Recently, cave microbiomes all over the world are of great scientific interest. However, the majority of investigations focused mostly on small subunit ribosomal RNA (16S rRNA) gene, leaving the ecological role of the microbial community largely unknown. Here, we are particularly interested in exploring the taxonomic composition and metabolic potential of microorganisms in soil from Manao-Pee cave, a subterranean limestone cave in the western part of Thailand, by using high-throughput shotgun metagenomic sequencing. RESULTS: From taxonomic composition analysis using ribosomal RNA genes (rRNA), the results confirmed that Actinobacteria (51.2%) and Gammaproteobacteria (24.4%) were the dominant bacterial groups in the cave soil community. Metabolic potential analysis, based on six functional modules of the Kyoto Encyclopedia of Genes and Genomes (KEGG) database, revealed that functional genes involved in microbial metabolisms are highly represented in this community (40.6%). To better understand how microbes thrive under unfavorable cave condition, we focused on microbial energy metabolism. The results showed that microbial genes involved in oxidative phosphorylation were the most dominant (28.8%) in Manao-Pee cave, and were followed by methane metabolism (20.5%), carbon fixation (16.0%), nitrogen metabolism (14.7%), and sulfur metabolism (6.3%). In addition, microbial genes involved in xenobiotic biodegradation (26 pathways) and in production of secondary metabolites (27 pathways) were also identified. CONCLUSION: In addition to providing information on microbial diversity, we also gained insights into microbial adaptations and survival strategies under cave conditions. Based on rRNA genes, the results revealed that bacteria belonging to the Actinobacteria and Gammaproteobacteria were the most abundant in this community. From metabolic potential analysis, energy and nutrient sources that sustain diverse microbial population in this community might be atmospheric gases (methane, carbon dioxide, nitrogen), inorganic sulfur, and xenobiotic compounds. In addition, the presence of biosynthetic pathways of secondary metabolites suggested that they might play important ecological roles in the cave microbiome.


Assuntos
Bactérias/classificação , Bactérias/genética , Metagenoma , Microbiota/genética , Microbiota/fisiologia , Microbiologia do Solo , Bactérias/metabolismo , Biodegradação Ambiental , Biodiversidade , Vias Biossintéticas/genética , Vias Biossintéticas/fisiologia , Ciclo do Carbono/fisiologia , Dióxido de Carbono/metabolismo , Ecologia , Metabolismo Energético/genética , Metabolismo Energético/fisiologia , Metano/metabolismo , Nitrogênio/metabolismo , RNA Ribossômico 16S/genética , Solo , Enxofre/metabolismo , Tailândia
3.
Biochem Biophys Res Commun ; 461(2): 300-6, 2015 May 29.
Artigo em Inglês | MEDLINE | ID: mdl-25871797

RESUMO

The interaction between Bacillus thuringiensis Cry toxins and their receptors on midgut cells of susceptible insect larvae is the critical determinant in toxin specificity. Besides GPI-linked alkaline phosphatase in Aedes aegypti mosquito-larval midguts, membrane-bound aminopeptidase N (AaeAPN) is widely thought to serve as a Cry4Ba receptor. Here, two full-length AaeAPN isoforms, AaeAPN2778 and AaeAPN2783, predicted to be GPI-linked were cloned and successfully expressed in Spodoptera frugiperda (Sf9) cells as 112- and 107-kDa membrane-bound proteins, respectively. In the cytotoxicity assay, Sf9 cells expressing each of the two AaeAPN isoforms showed increased sensitivity to the Cry4Ba mosquito-active toxin. Double immunolocalization revealed specific binding of Cry4Ba to each individual AaeAPN expressed on the cell membrane surface. Sequence analysis and homology-based modeling placed these two AaeAPNs to the M1 aminopeptidase family as they showed similar four-domain structures, with the most conserved domain II being the catalytic component. Additionally, the most variable domain IV containing negatively charged surface patches observed only in dipteran APNs could be involved in insect specificity. Overall results demonstrated that these two membrane-bound APN isoforms were responsible for mediating Cry4Ba toxicity against AaeAPN-expressed Sf9 cells, suggesting their important role as functional receptors for the toxin counterpart in A. aegypti mosquito larvae.


Assuntos
Aedes/microbiologia , Aedes/fisiologia , Bacillus thuringiensis/fisiologia , Proteínas de Bactérias/metabolismo , Antígenos CD13/metabolismo , Endotoxinas/metabolismo , Proteínas Hemolisinas/metabolismo , Proteínas de Insetos/metabolismo , Aedes/química , Sequência de Aminoácidos , Animais , Toxinas de Bacillus thuringiensis , Antígenos CD13/química , Linhagem Celular , Interações Hospedeiro-Patógeno , Proteínas de Insetos/química , Larva/química , Larva/microbiologia , Larva/fisiologia , Modelos Moleculares , Dados de Sequência Molecular , Isoformas de Proteínas/química , Isoformas de Proteínas/metabolismo , Alinhamento de Sequência
4.
Biochem Biophys Res Commun ; 435(2): 216-21, 2013 May 31.
Artigo em Inglês | MEDLINE | ID: mdl-23665023

RESUMO

We previously demonstrated that co-expression in Escherichia coli of Bacillus thuringiensis (Bt) subsp. israelensis Cry4Ba and Bt subsp. darmstadiensis Cyt2Aa2 shows high synergistic toxicity against target mosquito larvae. Here, further insights into synergistic interactions between these two toxins were revealed through bioactivity restoration of particular inactive Cry4Ba-mutant toxins altered within the receptor-binding domain. Specific mutations at ß2-ß3 (Y332A) or ß4-ß5 (F364A) loops, but neither at three other ß-hairpin loops (ß6-ß7, ß8-ß9 and ß10-ß11) of Cry4Ba, adversely affect toxicity restoration by Cyt2Aa2. Binding analysis using quartz crystal microbalance verified a decrease in binding of these two bioinactive-mutant toxins (Y332A and F364A) to the immobilized Cyt2Aa2. This suggests that Cry4Ba utilizes these two critical aromatic loop-residues, Tyr(332) and Phe(364), for synergistic toxicity with its alternative receptor-Cyt2Aa2.


Assuntos
Bacillus thuringiensis/metabolismo , Proteínas de Bactérias/química , Toxinas Bacterianas/química , Endotoxinas/química , Proteínas Hemolisinas/química , Toxinas de Bacillus thuringiensis , Sítios de Ligação , Ligação Proteica , Conformação Proteica
5.
Microb Ecol ; 66(2): 322-34, 2013 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-23504022

RESUMO

Industrial bagasse collection sites at sugar mills are an important resource for biomass-based industries and represent a unique ecological niche in lignocellulose degradation. In this study, microbial community structures at regions with varying microenvironmental conditions contained within a bagasse collection site were explored using tagged 16S rRNA gene pyrosequencing. Overall, remarkable differences in microbial community structures were found in aerobic surface and oxygen-limited interior regions of the pile. A variety of Alphaproteobacteria and Gammaproteobacteria represented the majority of bacteria in the aerobic upper-pile regions with the predominance of acetic acid bacteria towards the outer surface. Diverse Proteobacteria, Bacteroidetes, and Acidobacteria represented the predominant phyla at the exterior soil-contact pile base with an increasing abundance of anaerobic Spirochaetes with the increasing depth, where it shared similar community structures to that in the open-field soil from decomposed bagasse. Using complementary shotgun pyrosequencing, a variety of genes encoding various glycosyl hydrolases targeting cellulose and hemicellulose degradation were identified in the oxygen-limited interior pile base. Most were relevant to orders Clostridiales, Bacteroidales, Sphingobacteriales, and Cytophagales, suggesting their role in lignocellulose degradation in this region, as evidenced by the decrease in cellulose and respective increase in lignin fractions of the biomass. Partial carbon flux in the anoxic region was metabolized through mixed methanogenesis pathways as suggested by the annotated functional genes in methane synthesis. This study gives insights into native microbial community structures and functions in this unique lignocellulose degrading environment and provides the basis for controlling microbial processes important for utilization of bagasse in bio-industries.


Assuntos
Bactérias/classificação , Bactérias/isolamento & purificação , Celulose/análise , Resíduos Industriais/análise , Filogenia , Bactérias/genética , Bactérias/metabolismo , Biodiversidade , Lignina/metabolismo , Dados de Sequência Molecular
6.
Biosci Biotechnol Biochem ; 77(6): 1262-8, 2013.
Artigo em Inglês | MEDLINE | ID: mdl-23748789

RESUMO

Short-chain-length medium-chain-length polyhydroxyalkanoate (SCL-MCL PHA) copolymers are promising as bio-plastics with properties ranging from thermoplastics to elastomers. In this study, the hybrid pathway for the biosynthesis of SCL-MCL PHA copolymers was established in recombinant Escherichia coli by co-expression of ß-ketothiolase (PhaARe) and NADPH-dependent acetoacetyl-CoA reductase (PhaBRe) from Ralstonia eutropha together with PHA synthases from R. eutropha (PhaCRe), Aeromonas hydrophila (PhaCAh), and Pseudomonas putida (PhaC2Pp) and with (R)-specific enoyl-CoA hydratases from P. putida (PhaJ1Pp and PhaJ4Pp), and A. hydrophila (PhaJAh). When glycerol supplemented with dodecanoate was used as primary carbon source, E. coli harboring various combinations of PhaABCJ produced SCL-MCL PHA copolymers of various monomer compositions varying from C4 to C10. In addition, polymer property analysis suggested that the copolymers produced from this recombinant source have thermal properties (lower glass transition and melting temperatures) superior to polyhydroxybutyrate homopolymer.


Assuntos
Escherichia coli/enzimologia , Escherichia coli/genética , Poli-Hidroxialcanoatos/biossíntese , Polímeros/química , Oxirredutases do Álcool/genética , Enoil-CoA Hidratase/genética , Enoil-CoA Hidratase/metabolismo , Regulação Bacteriana da Expressão Gênica , Engenharia Genética , Glicerol/química , Glicerol/metabolismo , Lauratos/química , Lauratos/metabolismo , Poli-Hidroxialcanoatos/química , Poli-Hidroxialcanoatos/genética
7.
Sci Rep ; 13(1): 7055, 2023 04 29.
Artigo em Inglês | MEDLINE | ID: mdl-37120654

RESUMO

With the rapid rate of SARS-CoV-2 Main protease (Mpro) structures deposition, a computational method that can combine all the useful structural features becomes crucial. This research focuses on the frequently occurring atoms and residues to find a generalized strategy for inhibitor design given a large amount of protein complexes from SARS-CoV in contrast to SARS-CoV-2 Mpro. By superposing large numbers of the ligands onto the protein template and grid box, we can analyse which part of the structure is conserved from position-specific interaction for both data sets for the development of pan-Mpro antiviral design. The difference in conserved recognition sites from the crystal structures can be used to determine specificity determining residues for designing selective drugs. We can display pictures of the imaginary shape of the ligand by unionising all atoms from the ligand. We also pinpoint the most probable atom adjustments to imitate the frequently found densities from the ligand atoms statistics. With molecular docking, Molecular Dynamics simulation, and MM-PBSA methods, a carbonyl replacement at the nitrile warhead (N5) of Paxlovid's Nirmatrelvir (PF-07321332) was suggested. By gaining insights into the selectivity and promiscuity regions for proteins and ligands, crucial residues are highlighted, and the antiviral design strategies are proposed.


Assuntos
COVID-19 , SARS-CoV-2 , Humanos , SARS-CoV-2/metabolismo , Simulação de Acoplamento Molecular , Ligantes , Inibidores de Proteases/química , Antivirais/farmacologia , Antivirais/química , Simulação de Dinâmica Molecular , Peptídeo Hidrolases/metabolismo
8.
J Biotechnol ; 355: 53-64, 2022 Aug 20.
Artigo em Inglês | MEDLINE | ID: mdl-35788357

RESUMO

CRISPR/Cas technology is a versatile tool for genome engineering in many organisms, including filamentous fungi. Cpf1 is a multi-domain protein of class 2 (type V) RNA-guided CRISPR/Cas endonuclease, and is an alternative platform with distinct features when compared to Cas9. However, application of this technology in filamentous fungi is limited. Here, we present a single CRISPR/Cpf1 plasmid system in Aspergillus aculeatus strain TBRC 277, an industrially relevant cell factory. We first evaluated the functionality of three Cpf1 orthologs from Acidaminococcus sp. BV3L6 (AsCpf1), Francisella tularensis subsp. novicida U112 (FnCpf1), and Lachnospiraceae bacterium (LbCpf1), in RNA-guided site-specific DNA cleavage at the pksP locus. FnCpf1 showed the highest editing efficiency (93 %) among the three Cpf1s. It was further investigated for its ability to delete a 1.7 kb and a 0.5 kb from pksP and pyrG genes, respectively, using two protospacers targeting these gene loci in a single crRNA array. Lastly, simultaneous editing of three sites within TBRC 277 genome was performed using three guide sequences targeting these two genes as well as an additional gene, kusA, which resulted in combined editing efficiency of 40 %. The editing of the NHEJ pathway by targeting kusA to generate a NHEJ-deficient strain of A. aculeatus TBRC 277 improved gene targeting efficiency and yielded more precise gene-editing than that of using wild-type strain. This promising genome-editing system can be used for strain improvement in industrial applications such as production of valuable bioproducts.


Assuntos
Sistemas CRISPR-Cas , Edição de Genes , Aspergillus/genética , Aspergillus/metabolismo , Sistemas CRISPR-Cas/genética , Endonucleases/genética , Endonucleases/metabolismo , Francisella , Edição de Genes/métodos , RNA
9.
Biochem Biophys Res Commun ; 407(4): 708-13, 2011 Apr 22.
Artigo em Inglês | MEDLINE | ID: mdl-21439264

RESUMO

Bacillus thuringiensis Cry4Ba toxin selectively kills Aedes aegypti mosquito larvae as it is in part due to the presence of specific membrane-bound protein receptors. In this study, using data mining approach, we initially identified three potential glycosylphosphatidylinositol-linked aminopeptidase N (GPI-APN) isoforms, APN2778, APN2783 and APN5808, which are believed to act as Cry4Ba toxin receptors. These three isoforms that are functionally expressed in the larval midgut can be sequence-specific knocked down (ranging from ∼80 % to 95 %) by soaking the Aedes aegypti larvae in buffer of long double-stranded GPI-APN RNAs (∼300-680 bp). Finally, to see the physiological effect of APN knockdowns, the larvae were fed with Escherichia coli expressing Cry4Ba toxin. The results revealed that all the three identified GPI-APN isoforms may possibly function as a Cry4Ba receptor, particularly for APN2783 as those larvae with this transcript knockdown showed a dramatic increase in resistance to Cry4Ba toxicity.


Assuntos
Aedes/efeitos dos fármacos , Aedes/genética , Proteínas de Bactérias/toxicidade , Antígenos CD13/genética , Resistência a Medicamentos/genética , Endotoxinas/toxicidade , Proteínas Hemolisinas/toxicidade , Inseticidas/toxicidade , Aedes/enzimologia , Sequência de Aminoácidos , Animais , Toxinas de Bacillus thuringiensis , Técnicas de Silenciamento de Genes , Glicosilfosfatidilinositóis/metabolismo , Isoenzimas/genética , Larva/efeitos dos fármacos , Larva/enzimologia , Larva/genética , Dados de Sequência Molecular , Interferência de RNA , RNA Mensageiro/antagonistas & inibidores , Análise de Sequência de Proteína , Transcrição Gênica
10.
Appl Environ Microbiol ; 77(19): 6836-40, 2011 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-21856837

RESUMO

Glycosylphosphatidylinositol-linked alkaline phosphatase (GPI-ALP) from the epithelial membrane of the larval midgut of Aedes aegypti was previously identified as a functional receptor of the Bacillus thuringiensis Cry4Ba toxin. Here, heterologous expression in Escherichia coli of the cloned ALP, lacking the secretion signal and GPI attachment sequences, and assessment of its binding characteristics were further investigated. The 54-kDa His tag-fused ALP overexpressed as an inclusion body was soluble when phosphate buffer (pH 7.5) was supplemented with 8 M urea. After renaturation in a nickel-nitrilotriacetic acid (Ni-NTA) affinity column, the refolded ALP protein was able to retain its phosphatase activity. This refolded ALP also showed binding to the 65-kDa activated Cry4Ba toxin under nondenaturing (dot blot) conditions. Quantitative binding analysis using a quartz crystal microbalance revealed that the purified ALP immobilized on a gold electrode was bound by the Cry4Ba toxin in a stoichiometry of approximately 1:2 and with high affinity (dissociation constant [K(d)] of ∼14 nM) which is comparable to that calculated from kinetic parameters (dissociation rate constant [k(off)]/binding constant [k(on)]). Altogether, the data presented here of the E. coli-expressed ALP from A. aegypti retaining high-affinity toxin binding support our notion that glycosylation of this receptor is not required for binding to its counterpart toxin, Cry4Ba.


Assuntos
Aedes/enzimologia , Fosfatase Alcalina/metabolismo , Proteínas de Bactérias/metabolismo , Endotoxinas/metabolismo , Proteínas Ligadas por GPI/metabolismo , Proteínas Hemolisinas/metabolismo , Proteínas de Insetos/metabolismo , Aedes/genética , Fosfatase Alcalina/genética , Animais , Toxinas de Bacillus thuringiensis , Proteínas de Bactérias/química , Cromatografia de Afinidade , Clonagem Molecular , Endotoxinas/química , Escherichia coli/genética , Proteínas Ligadas por GPI/genética , Trato Gastrointestinal/enzimologia , Proteínas Hemolisinas/química , Proteínas de Insetos/genética , Cinética , Peso Molecular , Ligação Proteica , Proteínas Recombinantes de Fusão/química , Proteínas Recombinantes de Fusão/genética , Proteínas Recombinantes de Fusão/isolamento & purificação , Proteínas Recombinantes de Fusão/metabolismo
11.
Protein Expr Purif ; 70(1): 60-7, 2010 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-19818856

RESUMO

A mature phytase cDNA, encoding 441 amino acids, from Eupenicillium parvum (BCC17694) was cloned into a Pichia pastoris expression vector, pPICZ alpha A, and was successfully expressed as active extracellular glycosylated protein. The recombinant phytase contained the active site RHGXRXP and HD sequence motifs, a large alpha/beta domain and a small alpha-domain that are typical of histidine acid phosphatase. Glycosylation was found to be important for enzyme activity which is most active at 50 degrees C and pH 5.5. The recombinant phytase displayed broad substrate specificity toward p-nitrophenyl phosphate, sodium-, calcium-, and potassium-phytate. The enzyme lost its activity after incubating at 50 degrees C for 5 min and is 50% inhibited by 5mM Cu(2+). However, the enzyme exhibits broad pH stability from 2.5 to 8.0 and is resistant to pepsin. In vitro digestibility test suggested that BCC17694 phytase is at least as effective as another recombinant phytase (r-A170) which is comparable to Natuphos, a commercial phytase, in releasing phosphate from corn-based animal feed, suggesting that BCC17694 phytase is suitable for use as phytase supplement in the animal diet.


Assuntos
6-Fitase/química , 6-Fitase/metabolismo , Eupenicillium/enzimologia , Pichia/metabolismo , 6-Fitase/genética , Sequência de Aminoácidos , Clonagem Molecular , Eupenicillium/metabolismo , Cinética , Dados de Sequência Molecular , Pichia/genética , Proteínas Recombinantes de Fusão/química , Proteínas Recombinantes de Fusão/genética , Proteínas Recombinantes de Fusão/metabolismo , Alinhamento de Sequência
12.
Microbiol Resour Announc ; 9(21)2020 May 21.
Artigo em Inglês | MEDLINE | ID: mdl-32439684

RESUMO

We isolated the novel strain Vibrio rotiferianus AM7 from the shell of an abalone. In this article, we report the complete genome sequence of this organism, which was obtained by combining Oxford Nanopore long-read and Illumina short-read sequencing data.

13.
Microbiol Resour Announc ; 8(45)2019 Nov 07.
Artigo em Inglês | MEDLINE | ID: mdl-31699754

RESUMO

Staphylococcus arlettae is one coagulase-negative species in the bacterial genus Staphylococcus Here, we describe the closed complete genome sequence of S. arlettae strain P2, which was obtained using a hybrid approach combining Oxford Nanopore long-read and Illumina MiSeq short-read sequencing data.

14.
J Biotechnol ; 133(1): 42-9, 2008 Jan 01.
Artigo em Inglês | MEDLINE | ID: mdl-17983680

RESUMO

Functional screening for lipolytic enzymes from a metagenomic library (origin: Jae Sawn hot spring, Thailand) resulted in isolation of a novel patatin-like phospholipase (PLP) and an esterase (Est1). PLP contained four conserved domains similar to other patatin-like proteins with lipid acyl hydrolase activity. Likewise, sequence alignment analysis revealed that Est1 can be classified as a family V bacterial lipolytic enzyme. Both PLP and Est1 were expressed heterologously as soluble proteins in E. coli and exhibited more than 50% of their maximal activities at alkaline pH, of 7-9 and 8-10, respectively. In addition, both enzymes retained more than 50% of maximal activity in the temperature range of 50-75 degrees C, with optimal activity at 70 degrees C and were stable at 70 degrees C for at least 120 min. Both PLP and Est1 exhibited high V(max) toward p-nitrophenyl butyrate. The enzymes had activity toward both short-chain (C(4) and C(5)) and long chain (C(14) and C(16)) fatty acid esters. The isolated enzymes, are therefore, different from other known patatin-like phospholipases and esterases, which usually show no activity for substrates longer than C(10). We suggest that PLP and EstA enzymes are novel and have a; b potential use in industrial applications.


Assuntos
Esterases/química , Esterases/genética , Fontes Termais/microbiologia , Fosfolipases/química , Fosfolipases/genética , Sequência de Bases , Mapeamento Cromossômico , Ativação Enzimática , Estabilidade Enzimática , Esterases/metabolismo , Lipídeos/química , Lipólise , Dados de Sequência Molecular , Biblioteca de Peptídeos , Fosfolipases/metabolismo , Especificidade da Espécie , Temperatura , Tailândia
15.
DNA Seq ; 16(5): 372-8, 2005 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-16329166

RESUMO

Xylanases are one of the industrially valuable enzymes. Using RT-PCR and 5'- and 3'-RACE procedures, we have cloned a full-length xylanase encoding gene from a filamentous fungus, Cryptovalsa mangrovei (BCC7197) from Phuket, Thailand. The results showed that BCC7197 xylanase cDNA has an open reading frame of 978 bp encoding 325 amino acid residues. Further sequence analysis revealed that this xylanase gene is belonged to the glycosyl hydrolase family 10 and has approximately 50-60% amino acid sequence similarity to other fungal xylanases. Furthermore, expression of BCC7197 xylanase in the Pichia pastoris was also performed. The results demonstrated that the active BCC7197 xylanase protein was successfully produced and secreted from P. pastoris.


Assuntos
Ascomicetos/enzimologia , Endo-1,4-beta-Xilanases/genética , Pichia/genética , Sequência de Aminoácidos , Clonagem Molecular , Primers do DNA , Endo-1,4-beta-Xilanases/biossíntese , Endo-1,4-beta-Xilanases/isolamento & purificação , Modelos Moleculares , Dados de Sequência Molecular , Pichia/enzimologia , Homologia de Sequência de Aminoácidos
16.
J Biosci Bioeng ; 119(4): 384-91, 2015 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-25441441

RESUMO

Lignocellulose decomposition is a natural process involving the cooperative action of various glycosyl hydrolases (GH) on plant cell wall components. In this study, a metagenomic library was constructed to capture the genetic diversity of microbes inhabiting an industrial bagasse collection site. A variety of putative genes encoding GH families 2, 3, 5, 9, 11, and 16 were identified using activity-based screening, which showed low to moderate homology to various cellulases and hemicellulases. The recombinant GH9 endoglucanase (Cel9) and GH11 endo-xylanase (Xyn11) were thermophilic with optimal activity between 75°C and 80°C and the maximal activity at slightly acidic to neutral pH range. The enzymes exhibited cooperative activity with Trichoderma reesei cellulase on the degradation of lignocellulosic substrates. Mixture design showed positive interactions among the enzyme components. The optimal combination was determined to be 41.4% Celluclast, 18.0% Cel9, and 40.6% Xyn11 with the predicted relative reducing sugar of 658% when compared to Celluclast alone on hydrolysis of alkaline-pretreated bagasse. The work demonstrates the potential of lignocellulolytic enzymes from a novel uncultured microbial resource for enhancing efficiency of biomass-degrading enzyme systems for bio-industries.


Assuntos
Celulases/genética , Celulases/metabolismo , Celulose/metabolismo , Biblioteca Gênica , Metagenômica , Saccharum/microbiologia , Biomassa , Endo-1,4-beta-Xilanases/metabolismo , Concentração de Íons de Hidrogênio , Hidrólise , Lignina/metabolismo , Polissacarídeos/metabolismo , Temperatura , Trichoderma/enzimologia
17.
J Biochem Mol Biol ; 36(5): 508-13, 2003 Sep 30.
Artigo em Inglês | MEDLINE | ID: mdl-14536036

RESUMO

The bacterium Bacillus thuringiensis produces toxin inclusions that are deleterious to target insect larvae. These toxins are believed to interact with a specific receptor protein(s) that is present on the gut epithelial cells of the larvae. In various insect species (in particular those belonging to the lepidopteran class), aminopeptidase N (APN) is one of the two receptor proteins that are considered to be involved in toxin-receptor interactions. However, in mosquitoes, the nature and identity of the receptor protein is unknown. Here, using RT-PCR, we identified two isoforms of the APN transcripts in the Aedes aegypti mosquito larval midgut. These results are congruent with a previous report of multiple isoforms of the APN gene expression in lepidopteran larvae. Which of the two isoforms (or other yet unidentified receptor proteins) is involved in the killing of mosquito larvae remains to be elucidated.


Assuntos
Aedes/enzimologia , Antígenos CD13/genética , Sequência de Aminoácidos , Animais , Sequência de Bases , Isoenzimas/genética , Larva/enzimologia , Dados de Sequência Molecular , Reação em Cadeia da Polimerase Via Transcriptase Reversa
18.
J Microbiol Biotechnol ; 22(12): 1636-43, 2012 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-23221525

RESUMO

Enzymatic pre-bleaching by modification of pulp fibers with xylanases is an attractive approach to reduce the consumption of toxic bleaching chemicals in the paper industry. In this study, an alkaliphilic endoxylanase gene was isolated from metagenomic DNA of a structurally stable thermophilic lignocellulose-degrading microbial consortium using amplification with conserved glycosyl hydrolase family 10 primers and subsequent genome walking. The full-length xylanase showed 78% sequence identity to an endo-beta-1,4-xylanase of Clostridium phytofermentans and was expressed in a mature form with an N-terminal His6 tag fusion in Escherichia coli. The recombinant xylanase Xyn3F was thermotolerant and alkaliphilic, working optimally at 65-70 degrees C with an optimal pH at 9- 10 and retaining >80% activity at pH 9, 60 degrees C for 1 h. Xyn3F showed a Vmax of 2,327 IU/mg and Km of 3.5 mg/ml on birchwood xylan. Pre-bleaching of industrial eucalyptus pulp with no prior pH adjustment (pH 9) using Xyn3F at 50 IU/g dried pulp led to 4.5-5.1% increase in final pulp brightness and 90.4-102.4% increase in whiteness after a single-step hypochlorite bleaching over the untreated pulp, which allowed at least 20% decrease in hypochlorite consumption to achieve the same final bleaching indices. The alkaliphilic xylanase is promising for application in an environmentally friendly bleaching step of kraft and soda pulps with no requirement for pH adjustment, leading to improved economic feasibility of the process.


Assuntos
Proteínas de Bactérias/metabolismo , Clareadores/metabolismo , Endo-1,4-beta-Xilanases/metabolismo , Lignina/metabolismo , Proteínas de Bactérias/química , Proteínas de Bactérias/genética , Clareadores/química , Clonagem Molecular , Endo-1,4-beta-Xilanases/química , Endo-1,4-beta-Xilanases/genética , Escherichia coli/genética , Eucalyptus , Concentração de Íons de Hidrogênio , Hidrólise , Metagenoma , Consórcios Microbianos , Proteínas Recombinantes/química , Proteínas Recombinantes/genética , Proteínas Recombinantes/metabolismo , Temperatura
19.
Insect Biochem Mol Biol ; 41(3): 159-66, 2011 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-21146607

RESUMO

Bacillus thuringiensis produces insecticidal crystal (Cry) proteins which bind to cell surface receptors on the brush border membrane of susceptible midgut larvae. The toxin-receptor interaction generates pores in midgut epithelial cells resulting in cell lysis. Here, a cDNA encoding membrane-bound alkaline phosphatase from Aedes aegypti (Aa-mALP) midgut larvae, based on the sequence identity hit to Bombyx mori membrane-bound ALP, was amplified by RT-PCR and transiently expressed in Spodoptera frugiperda (Sf9) insect cells as a 58-kDa membrane-bound protein via the baculovirus expression system and confirmed by digestion with phosphatidylinositol-specific phospholipase C and LC-MS/MS analysis. Immunolocalization results showed that Cry4Ba is able to bind to only Sf9 cells-expressing Aa-mALP. Moreover, these cells were shown to undergo cell lysis in the presence of 100 µg/ml trypsin-treated toxin. Finally, trypan blue exclusion assay also demonstrated an increase in cell death in recombinant cells treated with Cry4Ba. Overall results indicated that Aa-mALP protein was responsible for mediating Cry4Ba toxicity against Sf9 cells, suggesting its role as a receptor for Cry4Ba toxin in A. aegypti mosquito larvae.


Assuntos
Aedes/enzimologia , Aedes/genética , Fosfatase Alcalina/metabolismo , Proteínas de Bactérias/metabolismo , Proteínas de Insetos/metabolismo , Aedes/metabolismo , Fosfatase Alcalina/química , Fosfatase Alcalina/genética , Sequência de Aminoácidos , Animais , Bacillus thuringiensis/genética , Bacillus thuringiensis/metabolismo , Toxinas de Bacillus thuringiensis , Proteínas de Bactérias/genética , Endotoxinas/genética , Endotoxinas/metabolismo , Glicosilfosfatidilinositóis/genética , Glicosilfosfatidilinositóis/metabolismo , Proteínas Hemolisinas/genética , Proteínas Hemolisinas/metabolismo , Proteínas de Insetos/química , Proteínas de Insetos/genética , Proteínas de Insetos/isolamento & purificação , Dados de Sequência Molecular , Fosfoinositídeo Fosfolipase C/genética , Fosfoinositídeo Fosfolipase C/metabolismo , Ligação Proteica , Receptores Imunológicos/genética , Receptores Imunológicos/metabolismo , Reação em Cadeia da Polimerase Via Transcriptase Reversa , Spodoptera/metabolismo
20.
Protein Expr Purif ; 58(1): 148-53, 2008 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-17964183

RESUMO

A gene encoding a cellobiohydrolase (CBHI) was isolated from Fusicoccum sp. (BCC4124), an endophytic fungus belongs in phylum Ascomycota, using 5' and 3' rapid amplification of cDNA end (RACE) technique. This CBHI gene contains 1395 nucleotides and encodes a 465-amino acid protein with a molecular weight of approximately 50 kDa. The deduced amino acid sequence showed significant similarity to those of other fungal CBHI belonging to family 7 of glycosyl hydrolase. Interestingly, the result from the amino acid alignment revealed that this CBHI does not contain the cellulose binding domain nor the linker region. The CBHI gene was successfully expressed in Pichia pastoris KM71. The purified recombinant CBHI has ability to hydrolyze Avicel, filter paper and 4-methylumbelliferyl beta-d-cellobioside (MUC) but not carboxymethylcellulose (CMC). It showed an optimal working condition at 40 degrees C, pH 5 with K(m) and V(max) toward MUC of 0.57 mM and 3.086 nmol/min/mg protein, respectively. The purified enzyme was stable at pH range of 3-11. The enzyme retained approximately 50% of its maximal activity after incubating at 70-90 degrees C for 30 min. Due to its stability through wide range of pH, and moderately stable at high temperature, this enzyme has potential in various biotechnology applications.


Assuntos
Ascomicetos/enzimologia , Celulose 1,4-beta-Celobiosidase/genética , Celulose 1,4-beta-Celobiosidase/metabolismo , Celulose 1,4-beta-Celobiosidase/isolamento & purificação , Clonagem Molecular , Expressão Gênica , Genes Fúngicos , Pichia/genética , Pichia/metabolismo , Proteínas Recombinantes/isolamento & purificação , Proteínas Recombinantes/metabolismo
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