Recent Approaches for the Production of High Value-Added Biofuels from Gelatinous Wastewater

Total Page:16

File Type:pdf, Size:1020Kb

Recent Approaches for the Production of High Value-Added Biofuels from Gelatinous Wastewater energies Review Recent Approaches for the Production of High Value-Added Biofuels from Gelatinous Wastewater Ahmed Tawfik 1, Shou-Qing Ni 2, Hanem. M. Awad 3 , Sherif Ismail 2,4 , Vinay Kumar Tyagi 5, Mohd Shariq Khan 6, Muhammad Abdul Qyyum 7,* and Moonyong Lee 7,* 1 Water Pollution Research Department, National Research Centre, Giza 12622, Egypt; [email protected] 2 Shandong Provincial Key Laboratory of Water Pollution Control and Resource Reuse, School of Environmental Science and Engineering, Shandong University, Qingdao 266237, China; [email protected] (S.-Q.N.); [email protected] (S.I.) 3 Department Tanning Materials and Leather Technology & Regulatory Toxicology Lab, National Research Centre, Centre of Excellence, Giza 12622, Egypt; [email protected] 4 Environmental Engineering Department, Zagazig University, Zagazig 44519, Egypt 5 Environmental Biotechnology Group (EBiTG), Department of Civil Engineering, Indian Institute of Technology, Roorkee 247667, India; [email protected] 6 Department of Chemical Engineering, Dhofar University, Salalah 211, Oman; [email protected] 7 School of Chemical Engineering, Yeungnam University, Gyeongsan 712-749, Korea * Correspondence: [email protected] (M.A.Q.); [email protected] (M.L.) Abstract: Gelatin production is the most industry polluting process where huge amounts of raw organic materials and chemicals (HCl, NaOH, Ca2+) are utilized in the manufacturing accompanied by voluminous quantities of end-pipe effluent. The gelatinous wastewater (GWW) contains a large fraction of protein and lipids with biodegradability (BOD/COD ratio) exceeding 0.6. Thus, it repre- Citation: Tawfik, A.; Ni, S.-Q.; sents a promising low-cost substrate for the generation of biofuels, i.e., H2 and CH4, by the anaerobic Awad, H.M.; Ismail, S.; Tyagi, V.K.; digestion process. This review comprehensively describes the anaerobic technologies employed for Khan, M.S.; Qyyum, M.A.; Lee, M. simultaneous treatment and energy recovery from GWW. The emphasis was afforded on factors Recent Approaches for the Production of High Value-Added affecting the biofuels productivity from anaerobic digestion of GWW, i.e., protein concentration, Biofuels from Gelatinous Wastewater. organic loading rate (OLR), hydraulic retention time (HRT), the substrate to inoculum (S0/X0) ratio, Energies 2021, 14, 4936. https:// type of mixed culture anaerobes, carbohydrates concentration, volatile fatty acids (VFAs), ammonia doi.org/10.3390/en14164936 and alkalinity/VFA ratio, and reactor configurations. Economic values and future perspectives that require more attention are also outlined to facilitate further advancement and achieve practicality in Academic Editors: Marcin D˛ebowski this domain. and Attilio Converti Keywords: gelatinous wastewater; protein degradation; anaerobic digestion; energy recovery; biofuels Received: 9 June 2021 Accepted: 3 August 2021 Published: 12 August 2021 1. Introduction Publisher’s Note: MDPI stays neutral The gelatin production in the world exceeds 375,000–400,000 tons per year which has with regard to jurisdictional claims in published maps and institutional affil- a considerable share in the economy of countries [1]. Each ton of raw materials, mainly 3 iations. bones, produces 300 m of gelatinous wastewater [2]. The gelatin industry generates huge quantities of heavily polluted wastewater containing proteins, carbohydrates, and lipids [3–6]. The gelatin processing end-of-pipe effluents have high organic contents (i.e., biochemical oxygen demand (BOD), chemical oxygen demand (COD), suspended solids (SS), and ammonia nitrogen (NH4-N) [3,4]. Moreover, the gelatinous wastewater (GWW) Copyright: © 2021 by the authors. contains high concentrations of sulfate (SO −2), calcium, and phosphorus [4,7,8]. Di- Licensee MDPI, Basel, Switzerland. 4 calcium phosphate is mainly produced during the de-mineralization process of bones [2,9]. This article is an open access article distributed under the terms and The main serious problem from gelatinous wastewater (GWW) is the odor, nuisance, conditions of the Creative Commons and that it is highly obnoxious to the habitation [2,10]. The GWW could be alkaline or Attribution (CC BY) license (https:// acidic based on the manufacturing process and the utilized raw materials [9]. GWW is creativecommons.org/licenses/by/ greasy and fibrous containing bovine bone pieces and hairs, resulting in high quantities 4.0/). of particulate organic matters [11,12]. The particulates mainly consist of animal crushed Energies 2021, 14, 4936. https://doi.org/10.3390/en14164936 https://www.mdpi.com/journal/energies Energies 2021, 14, x FOR PEER REVIEW 2 of 19 acidic based on the manufacturing process and the utilized raw materials [9]. GWW is Energies 2021, 14, 4936 greasy and fibrous containing bovine bone pieces and hairs, resulting2 in of 18high quantities of particulate organic matters [11,12]. The particulates mainly consist of animal crushed bones, skin, and hair, which is highly obnoxious [9]. The COD of GWW ranged from bones, skin, and9691.2 hair, to which23,016 ismg/L highly due obnoxious to the usage [9]. of The raw COD materials of GWW rich ranged in proteins, from lipids, and 9691.2 to 23,016carbohydrates. mg/L due The to the bovine usage hide of rawis soaked materials in a lime rich tank in proteins, at a pH lipids,exceeding and 12.0 for 10–12 carbohydrates.weeks, The resulting bovine hide in high is soaked residual in values a lime of tank calcium at a pHin the exceeding wastewater 12.0 streams for ranging 10–12 weeks,from resulting 3175.3 in highto 5210 residual mg/L valuesand alkaline of calcium pH of in 11.1–12.4. the wastewater Sodium streams hydroxide ranging is added during from 3175.3 tothe 5210 manufacturing mg/L and process alkaline resulting pH of 11.1–12.4. in alkalinity Sodium of 5432–6527 hydroxide mg isCaCO added3/L [3,5]. Sulfate 4−2 4 during the manufacturing(SO ) (1000–1496 process mg/L) resulting and NH in alkalinity–N (163.2–190 of 5432–6527 mg/L) are mg produced CaCO3/L in [ 3the,5]. GWW due to −2 Sulfate (SO4 the) (1000–1496ammonification mg/L) and and acidification NH4–N (163.2–190 processes mg/L) [3,6]. The are discharge produced of in such the wastewater GWW due tointo the ammonificationsewerage networks and or acidification water streams processes causes [3 severe,6]. The pollution discharge problems of such for drinking wastewater intowater sewerage [13–15]. networks This wastewater or water streamsshould causesbe treated severe prior pollution to discharging problems it into the for drinking waterenvironment [13–15]. due This wastewaterto its negative should impact be treated on the prior water to discharging streams [12,16,17]. it into However, the environmentsimultaneous due to its treatment negative impactand biofuels on the produc watertion streams from [GWW12,16,17 save]. However, energy and chemicals simultaneousand treatment produces and less biofuels excess production sludge [18]. from GWW save energy and chemicals and produces less excess sludge [18]. 2. Gelatin Compositions, Properties, Manufacturing Processes, Utilization, and 2. Gelatin Compositions,Applications Properties, Manufacturing Processes, Utilization, and Applications Gelatin is a slightly yellow, translucent, brittle solid matter, nearly tasteless, and Gelatin isodourless a slightly [7,18,19]. yellow, translucent,The gelatin brittleis mainly solid extracted matter, nearly from tasteless,the collagen and of animals’ odourless [7,18connective,19]. The gelatin tissue is(Figure mainly 1). extracted Collagen from represents the collagen 25–35% of animals’ of the total connective protein in the whole tissue (Figureanimal1). Collagen body. Gelatin represents is a 25–35%high molecular of the total weight protein protein in the composed whole animal of eighteen types of body. Gelatin is a high molecular weight protein composed of eighteen types of amino amino acids (Figure 1). Amino acids contain oxygen, carbon, nitrogen, and hydrogen, acids (Figure1). Amino acids contain oxygen, carbon, nitrogen, and hydrogen, forming forming proteins [20]. They contain an amino group (NH2) and a carboxyl group (COOH– proteins [20]. They contain an amino group (NH ) and a carboxyl group (COOH–). Gelatin ). Gelatin is composed of 98–99% protein2 and could be varied based on the source of the is composed of 98–99% protein and could be varied based on the source of the original original raw materials and manufacturing processing technique [8,21]. The amino acids of raw materials and manufacturing processing technique [8,21]. The amino acids of gelatin gelatin are 22% for glycine, 12% for proline, 12% for hydroxyproline, 10% for glutamic are 22% for glycine, 12% for proline, 12% for hydroxyproline, 10% for glutamic acid, 9% acid, 9% for alanine, 8% for arginine, 6% for aspartic acid, 4% for lysine, 4% for serine, 3% for alanine, 8% for arginine, 6% for aspartic acid, 4% for lysine, 4% for serine, 3% for for leucine, 2% for valine, 2% for phenylalanine, 2% for threonine, 1% for isoleucine, 1% leucine, 2% for valine, 2% for phenylalanine, 2% for threonine, 1% for isoleucine, 1% for for hydroxylysine, <1% for methionine, and histidine and <0.5% for tyrosine. hydroxylysine, <1% for methionine, and histidine and <0.5% for tyrosine. Figure 1.FigureGelatin 1. compositionGelatin composition and general and overviewgeneral overview of its production of its production process. process. The schematicThe diagram schematic (Figure diagram2) shows (Figure the steps 2) shows of the the manufacturing steps of the manufacturing processes of processes of gelatin from thegelatin animal’s from bonesthe animal’s and skin. bones Gelatin and isskin. mainly Gelatin derived is mainly from derived the skins from of pigs the skins of pigs and cattle. Theand raw cattle. skin The is dried, raw skin acidified is dried, followed acidified by alkalinefollowed processes by alkaline to extractprocesses the to extract the collagen [18]. The manufacturing processes of gelatin from animals are comprehensively discussed by [7]. Gelatin applications in the industries are presented in Figure3. Energies 2021, 14, x FOR PEER REVIEW 3 of 19 Energies 2021, 14, x FOR PEER REVIEW 3 of 19 Energies 2021, 14, 4936 collagen [18].
Recommended publications
  • WO 2018/064165 A2 (.Pdf)
    (12) INTERNATIONAL APPLICATION PUBLISHED UNDER THE PATENT COOPERATION TREATY (PCT) (19) World Intellectual Property Organization International Bureau (10) International Publication Number (43) International Publication Date WO 2018/064165 A2 05 April 2018 (05.04.2018) W !P O PCT (51) International Patent Classification: Published: A61K 35/74 (20 15.0 1) C12N 1/21 (2006 .01) — without international search report and to be republished (21) International Application Number: upon receipt of that report (Rule 48.2(g)) PCT/US2017/053717 — with sequence listing part of description (Rule 5.2(a)) (22) International Filing Date: 27 September 2017 (27.09.2017) (25) Filing Language: English (26) Publication Langi English (30) Priority Data: 62/400,372 27 September 2016 (27.09.2016) US 62/508,885 19 May 2017 (19.05.2017) US 62/557,566 12 September 2017 (12.09.2017) US (71) Applicant: BOARD OF REGENTS, THE UNIVERSI¬ TY OF TEXAS SYSTEM [US/US]; 210 West 7th St., Austin, TX 78701 (US). (72) Inventors: WARGO, Jennifer; 1814 Bissonnet St., Hous ton, TX 77005 (US). GOPALAKRISHNAN, Vanch- eswaran; 7900 Cambridge, Apt. 10-lb, Houston, TX 77054 (US). (74) Agent: BYRD, Marshall, P.; Parker Highlander PLLC, 1120 S. Capital Of Texas Highway, Bldg. One, Suite 200, Austin, TX 78746 (US). (81) Designated States (unless otherwise indicated, for every kind of national protection available): AE, AG, AL, AM, AO, AT, AU, AZ, BA, BB, BG, BH, BN, BR, BW, BY, BZ, CA, CH, CL, CN, CO, CR, CU, CZ, DE, DJ, DK, DM, DO, DZ, EC, EE, EG, ES, FI, GB, GD, GE, GH, GM, GT, HN, HR, HU, ID, IL, IN, IR, IS, JO, JP, KE, KG, KH, KN, KP, KR, KW, KZ, LA, LC, LK, LR, LS, LU, LY, MA, MD, ME, MG, MK, MN, MW, MX, MY, MZ, NA, NG, NI, NO, NZ, OM, PA, PE, PG, PH, PL, PT, QA, RO, RS, RU, RW, SA, SC, SD, SE, SG, SK, SL, SM, ST, SV, SY, TH, TJ, TM, TN, TR, TT, TZ, UA, UG, US, UZ, VC, VN, ZA, ZM, ZW.
    [Show full text]
  • Clostridium Sufflavum Sp. Nov., Isolated from a Methanogenic Reactor Treating Cattle Waste
    International Journal of Systematic and Evolutionary Microbiology (2009), 59, 981–986 DOI 10.1099/ijs.0.001719-0 Clostridium sufflavum sp. nov., isolated from a methanogenic reactor treating cattle waste Tomomi Nishiyama, Atsuko Ueki, Nobuo Kaku and Katsuji Ueki Correspondence Faculty of Agriculture, Yamagata University, Wakaba-machi 1-23, Tsuruoka, Yamagata 997-8555, Atsuko Ueki Japan [email protected] A strictly anaerobic, mesophilic, cellulolytic bacterial strain, designated CDT-1T, was isolated from rice-straw residue from a methanogenic reactor treating waste from cattle farms. The isolation was performed using enrichment culture with filter paper as a substrate. Cells stained Gram-negative, but reacted Gram-positively in the KOH test. Cells were slightly curved rods and were motile by means of peritrichous flagella. The strain produced yellow pigment when grown on filter-paper fragments. Although spore formation was not confirmed microscopically, thermotolerant cells were produced when the strain was grown on filter paper. The optimum temperature for growth was 33 6C and the optimum pH was 7.4. Oxidase, catalase and nitrate-reducing activities were absent. The strain utilized xylose, fructose, glucose, cellobiose, xylooligosaccharide, cellulose (filter-paper fragments and ball-milled filter paper) and xylan. The major fermentation products were acetate, ethanol, H2 and CO2. The major cellular fatty acids were iso-C15 : 0, iso-C14 : 0 and C16 : 0 DMA. The cell-wall peptidoglycan contained meso-diaminopimelic acid as the diagnostic diamino acid. The genomic DNA G+C content was 40.7 mol%. On the basis of 16S rRNA gene sequence similarities, strain CDT-1T could be placed in cluster III of the genus Clostridium, being closely related to type strains of Clostridium hungatei (96.6 % sequence similarity), Clostridium termitidis (96.2 %) and Clostridium papyrosolvens (96.1 %).
    [Show full text]
  • WO 2014/135633 Al 12 September 2014 (12.09.2014) P O P C T
    (12) INTERNATIONAL APPLICATION PUBLISHED UNDER THE PATENT COOPERATION TREATY (PCT) (19) World Intellectual Property Organization I International Bureau (10) International Publication Number (43) International Publication Date WO 2014/135633 Al 12 September 2014 (12.09.2014) P O P C T (51) International Patent Classification: (81) Designated States (unless otherwise indicated, for every C12N 9/04 (2006.01) C12P 7/16 (2006.01) kind of national protection available): AE, AG, AL, AM, C12N 9/88 (2006.01) AO, AT, AU, AZ, BA, BB, BG, BH, BN, BR, BW, BY, BZ, CA, CH, CL, CN, CO, CR, CU, CZ, DE, DK, DM, (21) Number: International Application DO, DZ, EC, EE, EG, ES, FI, GB, GD, GE, GH, GM, GT, PCT/EP2014/054334 HN, HR, HU, ID, IL, IN, IR, IS, JP, KE, KG, KN, KP, KR, (22) International Filing Date: KZ, LA, LC, LK, LR, LS, LT, LU, LY, MA, MD, ME, 6 March 2014 (06.03.2014) MG, MK, MN, MW, MX, MY, MZ, NA, NG, NI, NO, NZ, OM, PA, PE, PG, PH, PL, PT, QA, RO, RS, RU, RW, SA, (25) Filing Language: English SC, SD, SE, SG, SK, SL, SM, ST, SV, SY, TH, TJ, TM, (26) Publication Language: English TN, TR, TT, TZ, UA, UG, US, UZ, VC, VN, ZA, ZM, ZW. (30) Priority Data: 13 158012.8 6 March 2013 (06.03.2013) EP (84) Designated States (unless otherwise indicated, for every kind of regional protection available): ARIPO (BW, GH, (71) Applicants: CLARIANT PRODUKTE (DEUTSCH- GM, KE, LR, LS, MW, MZ, NA, RW, SD, SL, SZ, TZ, LAND) GMBH [DE/DE]; Briiningstrasse 50, 65929 UG, ZM, ZW), Eurasian (AM, AZ, BY, KG, KZ, RU, TJ, Frankfurt am Main (DE).
    [Show full text]
  • Neocallimastix Californiae G1 36,250,970 NA 29,649 95.52 85.2 SRX2598479 (3)
    Supplementary material for: Horizontal gene transfer as an indispensable driver for Neocallimastigomycota evolution into a distinct gut-dwelling fungal lineage 1 1 1 2 Chelsea L. Murphy ¶, Noha H. Youssef ¶, Radwa A. Hanafy , MB Couger , Jason E. Stajich3, Y. Wang3, Kristina Baker1, Sumit S. Dagar4, Gareth W. Griffith5, Ibrahim F. Farag1, TM Callaghan6, and Mostafa S. Elshahed1* Table S1. Validation of HGT-identification pipeline using previously published datasets. The frequency of HGT occurrence in the genomes of a filamentous ascomycete and a microsporidian were determined using our pipeline. The results were compared to previously published results. Organism NCBI Assembly Reference Method used Value Value accession number to original in the original reported obtained study study in this study Colletotrichum GCA_000149035.1 (1) Blast and tree 11 11 graminicola building approaches Encephalitozoon GCA_000277815.3 (2) Blast against 12-22 4 hellem custom database, AI score calculation, and tree building Table S2. Results of transcriptomic sequencing. Accession number Genus Species Strain Number of Assembled Predicted peptides % genome Ref. reads transcriptsa (Longest Orfs)b completenessc coveraged (%) Anaeromyces contortus C3G 33,374,692 50,577 22,187 96.55 GGWR00000000 This study Anaeromyces contortus C3J 54,320,879 57,658 26,052 97.24 GGWO00000000 This study Anaeromyces contortus G3G 43,154,980 52,929 21,681 91.38 GGWP00000000 This study Anaeromyces contortus Na 42,857,287 47,378 19,386 93.45 GGWN00000000 This study Anaeromyces contortus O2 60,442,723 62,300 27,322 96.9 GGWQ00000000 This study Anaeromyces robustus S4 21,955,935 NA 17,127 92.41 88.7 SRX3329608 (3) Caecomyces sp.
    [Show full text]
  • A Comprehensive and Quantitative Review of Dark Fermentative Biohydrogen Production Simon Rittmann and Christoph Herwig*
    Rittmann and Herwig Microbial Cell Factories 2012, 11:115 http://www.microbialcellfactories.com/content/11/1/115 REVIEW Open Access A comprehensive and quantitative review of dark fermentative biohydrogen production Simon Rittmann and Christoph Herwig* Abstract Biohydrogen production (BHP) can be achieved by direct or indirect biophotolysis, photo-fermentation and dark fermentation, whereof only the latter does not require the input of light energy. Our motivation to compile this review was to quantify and comprehensively report strains and process performance of dark fermentative BHP. This review summarizes the work done on pure and defined co-culture dark fermentative BHP since the year 1901. Qualitative growth characteristics and quantitative normalized results of H2 production for more than 2000 conditions are presented in a normalized and therefore comparable format to the scientific community. Statistically based evidence shows that thermophilic strains comprise high substrate conversion efficiency, but mesophilic strains achieve high volumetric productivity. Moreover, microbes of Thermoanaerobacterales (Family III) have to be preferred when aiming to achieve high substrate conversion efficiency in comparison to the families Clostridiaceae and Enterobacteriaceae. The limited number of results available on dark fermentative BHP from fed-batch cultivations indicates the yet underestimated potential of this bioprocessing application. A Design of Experiments strategy should be preferred for efficient bioprocess development and optimization
    [Show full text]
  • Third Generation Biofuels Via Direct Cellulose Fermentation
    Int. J. Mol. Sci. 2008, 9, 1342-1360; DOI: 10.3390/ijms9071342 OPEN ACCESS International Journal of Molecular Sciences ISSN 1422-0067 www.mdpi.org/ijms/ Review Third Generation Biofuels via Direct Cellulose Fermentation Carlo R. Carere 1, Richard Sparling 2, Nazim Cicek 1 and David B. Levin 1,* 1 Department of Biosystems Engineering, University of Manitoba, Winnipeg MB, Canada R3T 5V6 2 Department of Microbiology, University of Manitoba, Winnipeg MB, Canada R3T 5V6 E-mails: [email protected]; [email protected]; [email protected]; [email protected] * Author to whom correspondence should be addressed; E-Mail: [email protected]. Received: 23 April 2008; in revised form: 11 June 2008 / Accepted: 12 June 2008 / Published: 22 July 2008 Abstract: Consolidated bioprocessing (CBP) is a system in which cellulase production, substrate hydrolysis, and fermentation are accomplished in a single process step by cellulolytic microorganisms. CBP offers the potential for lower biofuel production costs due to simpler feedstock processing, lower energy inputs, and higher conversion efficiencies than separate hydrolysis and fermentation processes, and is an economically attractive near-term goal for “third generation” biofuel production. In this review article, production of third generation biofuels from cellulosic feedstocks will be addressed in respect to the metabolism of cellulolytic bacteria and the development of strategies to increase biofuel yields through metabolic engineering. Keywords: biofuels, ethanol, hydrogen, cellulose, fermentation. 1. Introduction With world energy consumption predicted to increase 54 % between 2001 and 2025, considerable focus is being directed towards the development of sustainable and carbon neutral energy sources to meet future needs [1].
    [Show full text]
  • Genetics and Regulation of Nitrogen Fixation in Free-Living Bacteria Nitrogen Fixation: Origins, Applications, and Research Progress
    Genetics and Regulation of Nitrogen Fixation in Free-Living Bacteria Nitrogen Fixation: Origins, Applications, and Research Progress VOLUME 2 Genetics and Regulation of Nitrogen Fixation in Free-Living Bacteria Edited by Werner Klipp Lehrstuhl für Biologie der Mikroorganismen, Fakultät für Biologie, Ruhr-Universität Bochum, Germany Bernd Masepohl Lehrstuhl für Biologie der Mikroorganismen, Fakultät für Biologie, Ruhr-Universität Bochum, Germany John R. Gallon Biochemistry Research Group, School of Biological Sciences, University of Wales, Swansea, U.K. and William E. Newton Department of Biochemistry, Virginia Polytechnic Institute & State University, Blacksburg, U.S.A. KLUWER ACADEMIC PUBLISHERS NEW YORK, BOSTON, DORDRECHT, LONDON, MOSCOW eBook ISBN: 1-4020-2179-8 Print ISBN: 1-4020-2178-X ©2005 Springer Science + Business Media, Inc. Print ©2004 Kluwer Academic Publishers Dordrecht All rights reserved No part of this eBook may be reproduced or transmitted in any form or by any means, electronic, mechanical, recording, or otherwise, without written consent from the Publisher Created in the United States of America Visit Springer's eBookstore at: http://ebooks.kluweronline.com and the Springer Global Website Online at: http://www.springeronline.com v TABLE OF CONTENTS Series Preface . ix Preface. xiii List of Contributors. xvii Dedication – Werner Klipp and John Gallon. xix Chapter 1. Historical Perspective – Development of nif Genetics and Regulation in Klebsiella pneumoniae R. Dixon . 1 1. Introduction . 1 2. The Early Years . 2 3. Defining the K. pneumoniae nif Genes . 4 4. The Recombinant DNA Era . 5 5. nif Gene Regulation . 6 6. Coda . 16 References . 17 Chapter 2. Genetics of Nitrogen Fixation and Related Aspects of Metabolism in Species of Azotobacter: History and Current Status C.
    [Show full text]
  • Clostridium Hungatei Sp. Nov., a Mesophilic, N2- Fixing Cellulolytic
    International Journal of Systematic and Evolutionary Microbiology (2001), 51, 123–132 Printed in Great Britain Clostridium hungatei sp. nov., a mesophilic, N2- fixing cellulolytic bacterium isolated from soil Esteban Monserrate,† Susan B. Leschine and Ercole Canale-Parola Author for correspondence: Esteban Monserrate. Tel: j1 413 585 3851. Fax: j1 413 585 3786. e-mail: emonserr!science.smith.edu Department of Two strains of obligately anaerobic, mesophilic, cellulolytic, N2-fixing, spore- Microbiology, University of forming bacteria were isolated from soil samples collected at two different Massachusetts, Amherst, MA 01003-5720, USA locations near Amherst, MA, USA. Single cells of both strains were slightly curved rods that measured between 2 and 6 µm in length and approximately 05 µm in diameter. The spores were spherical, terminally located, distended the sporangium and measured 08–10 µm in diameter. The cells of both isolates (designated strain ADT and strain B3B) stained Gram-negative, but did not have a typical Gram-negative cell wall structure as demonstrated by transmission electron microscope analysis. The cells of both strains were motile with subpolarly inserted flagella and exhibited chemotactic behaviour towards cellobiose and D-glucose. Both strains fermented cellulose, xylan, cellobiose, cellodextrins, D-glucose, D-xylose, D-fructose, D-mannose and gentiobiose. In addition, strain B3B fermented L-arabinose. For both strains, fermentation products from cellulose were acetate, ethanol, H2 and CO2, as well as small amounts of lactate and formate. The GMC content of strain AD was 40 mol% and that of strain B3B was 42 mol%. Based on their morphological, physiological and phylogenetic characteristics, it was concluded that the two isolates are representatives of a novel species of Clostridium.
    [Show full text]
  • Bioinformatics Methods and Biological Interpretation for Next-Generation Sequencing Data
    BioMed Research International Bioinformatics Methods and Biological Interpretation for Next-Generation Sequencing Data Guest Editors: Guohua Wang, Yunlong Liu, Dongxiao Zhu, Gunnar W. Klau, and Weixing Feng Bioinformatics Methods and Biological Interpretation for Next-Generation Sequencing Data BioMed Research International Bioinformatics Methods and Biological Interpretation for Next-Generation Sequencing Data Guest Editors: Guohua Wang, Yunlong Liu, Dongxiao Zhu, Gunnar W. Klau, and Weixing Feng Copyright © 2015 Hindawi Publishing Corporation. All rights reserved. This is a special issue published in “BioMed Research International.” All articles are open access articles distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Contents Bioinformatics Methods and Biological Interpretation for Next-Generation Sequencing Data, Guohua Wang, Yunlong Liu, Dongxiao Zhu, Gunnar W. Klau, and Weixing Feng Volume 2015, Article ID 690873, 2 pages MicroRNA Promoter Identification in Arabidopsis Using Multiple Histone Markers,YumingZhao, Fang Wang, and Liran Juan Volume 2015, Article ID 861402, 10 pages Constructing a Genome-Wide LD Map of Wild A. gambiae Using Next-Generation Sequencing, Xiaohong Wang, Yaw A. Afrane, Guiyun Yan, and Jun Li Volume 2015, Article ID 238139, 8 pages Survey of Programs Used to Detect Alternative Splicing Isoforms from Deep Sequencing Data In Silico, Feng Min, Sumei Wang, and Li Zhang Volume 2015,
    [Show full text]
  • Molecular Studies of the Human and Murine Intestinal Micro Biota
    PlEASE TYPE THE UNIVERSITY OF NEW SOUTH WALES Thesis/Proj(!ct Report Sheet Surname or Family name: Grehan First name: Martin Othe£ name/s: James Abbreviation for degree as given in the University calendar: PhD School: Biote<;hnology & Faculty:· Science Title: Biomolecular Sciences Molecular studies of the human and murine intestinal micro biota. Studies of the diversity of bacterial species in the human colon have recently been based on 16S ribosomal RNA sequences using molecular methods such as PCR and denaturing gradient gel electrophoresis (DGGE). However due to the limited number of published primer sets, an incomplete representation of faecal bacteria is obtained with this approach. This thesis developed molecular methods for detecting Helicobacter species in faecal samples and examined whether Helicobacter spp. were associated with inflammatory bowel disease. A PCR-DGGE assay for the detection and speciation of lower bowel helicobacters was developed and validated in mice. In a human study of 43 controls and 27 inflammatory bowel disease cases with nested PCR, there was no significant difference in the prevalence of Helicobacter spp. DNA found in IBD cases and controls. In all positive subjects the amplified DNA was identical to Helicobacter pylori, suggesting that wash-down of gastric organisms was responsible for the positive results. In order to increase the number of bacterial species that were represented by PCR- DGGE, primer sets were also developed for the three major groups of anaerobes present in human faeces; the Bacteroides-prevotella group, Clostridium coccoides group and Clostridium leptum subgroup. Using these assays it was shown that the bacterial species present in murine faecal and caecal samples were nearly identical.
    [Show full text]
  • References Associated with K. Bernard's Excel File Called “Review of Clostridium April 18 2017” NOTE: Many Older Species C
    References Associated with K. Bernard’s Excel file called “Review of Clostridium April 18 2017” NOTE: Many older species cited in the Excel file are solely linked to ref 1 (Collins et al, 1994) and / or ref 2 (Bergey’s manual, 2008). Most other references cited below are linked to taxa described AFTER 1994 or 2008 and historically were NOT cited in Collins and/or the Bergey’s chapter. References are only cited once; some references describe taxa which fell into multiple clusters. Literature cited (done April 19 2017) Cluster I references 1. Collins, MD, Lawson, PA, Willems, A, Cordoba, JJ, Fernandez-Garayzabal, J, Garcia, P, Cai, J, Hippe, H, Farrow, JA. 1994. The phylogeny of the genus Clostridium: proposal of five new genera and eleven new species combinations. Int. J. Syst. Bacteriol. 44:812-826. 2. Rainey, FA, Hollen, BJ, Small, A. 2008. Genus I. Clostridium Prazmowski 1880, 23 AL in Bergey's Manual of Systematic Bacteriology 2nd ed., p. 738-828. In De Vos, P, Garrity, GM, Jones, D, Krieg, NR, Ludwig, W, Rainey, FA, Schleifer, K, Whitman, WB (eds.), Bergey's Manual of Systematic Bacteriology 2nd ed., 2nd ed., vol. 3 The Firmicutes. Springer, Dordrecht Heidelberg London New York. 3. Orlygsson, J, Krooneman, J, Collins, MD, Pascual, C, Gottschalk, G. 1996. Clostridum acetireducens sp. nov., a novel amino acid-oxidizing, acetate-reducing anaerobic bacterium. Int. J. Syst. Bacteriol. 46:454-459. 4. Kuhner, CH, Matthies, C, Acker, G, Schmittroth, M, Gossner, AS, Drake, HL. 2000. Clostridium akagii sp. nov. and Clostridium acidisoli sp. nov.: acid-tolerant, N2-fixing clostridia isolated from acidic forest soil and litter.
    [Show full text]
  • Characterization of the Human Predominant Fecal Microbiota. with Special Focus on the Clostridial Clusters IV and Xiva. [Ihmisen
    VTT SCIENCE26 .Withspecial... fecalmicrobiota Characterization ofthehumanpredominant Characterization of the human predominant fecal IENCE C • •S T microbiota S E N C With special focus on the Clostridial clusters IV and XIVa O H I N S O I V Dissertation L • O S The human gut microbiota is considered to be a complex fermentor with a metabolic G T 26 Y H potential rivaling that of the liver. In addition to its primary function in digestion, the • R G I E indigenous microbial community has an important infl uence on host physiological, L S H E G A I R H C nutritional and immunological processes. H Molecular tools were developed for rapid, sensitive, and highly specifi c characterization of the human predominant fecal and salivary microbiota. Predominant bacterial, Eubacterium rectale – Blautia coccoides group (Erec), Clostridium leptum group (Clept), and Bacteroides spp. populations of healthy adults were temporally rather stable, showing intra-individual diversity and inter-individual variability. However, rRNA-based denaturing gradient gel electrophoresis (DGGE) profi les showed more temporal instability than DNA-based profi les. Moreover, the diversity of predominant bacteria and Erec-group bacteria was signifi cantly higher in elderly subjects as compared to younger adults. Clostridial populations represented the dominant fecal microbiota of most of the studied subjects. However, the proportion of Erec-group was signifi cantly lower in the constipation type IBS subjects than in the healthy adults. Altogether, the observations indicated that in addition to temporal instability of the active predominant fecal bacterial population, clostridial microbiota may be involved in IBS. Thereafter, the similarity of the salivary and fecal microbiota was studied to assess whether the upper gastrointestinal tract microbiota infl uence the results obtained with DNA-based methods from feces.
    [Show full text]