Complete genome sequence of a new clostridium sp. isolated from anaerobic digestion and biomethanation

Here, we present the genome sequence and annotation of the bacterial strain HV4-5-A1G, a potentially new Clostridium species. Based on its genomic data, this strain may act as a keystone microorganism in the hydrolysis of complex polymers, as well as in the different acidogenesis and acetogenesis steps during anaerobic digestion. © 2020 Hahnke et al

Draft Genome Sequence of a New Oscillospiraceae Bacterium Isolated from Anaerobic Digestion of Biomass

Here, we present the genome sequence and annotation of the novel bacterial strain HV4-5-C5C, which may represent a new genus within the family Oscillospiraceae (order Eubacteriales). This strain is a potential keystone species in the hydrolysis of complex polymers during anaerobic digestion of biomass. © 2020 Pascual et al

Complete Genome Sequence of a New Ruminococcaceae Bacterium Isolated from Anaerobic Biomass Hydrolysis

A new Ruminococcaceae bacterium, strain HV4-5-B5C, participating in the anaerobic digestion of grass, was isolated from a mesophilic two-stage laboratoryscale leach bed biogas system. The draft annotated genome sequence presented in this study and 16S rRNA gene sequence analysis indicated the affiliation of HV4-5- B5C with the family Ruminococcaceae outside recently described genera. © 2018 Hahnke et al

Complete genome sequence of a new Bacteroidaceae bacterium isolated from anaerobic biomass digestion

Here, we present the genome sequence and annotation of HV4-6-C5C, a bacterial strain isolated from a mesophilic two-stage laboratory-scale leach bed biogas reactor system. Strain HV4-6-C5C may represent a new genus of the family Bacteroidaceae and may have a key role in acidogenesis and acetogenesis steps during anaerobic biomass digestion. © 2019 Hahnke et al

Phage Genome Diversity in a Biogas-Producing Microbiome Analyzed by Illumina and Nanopore GridION Sequencing

The microbial biogas network is complex and intertwined, and therefore relatively stable in its overall functionality. However, if key functional groups of microorganisms are affected by biotic or abiotic factors, the entire efficacy may be impaired. Bacteriophages are hypothesized to alter the steering process of the microbial network. In this study, an enriched fraction of virus-like particles was extracted from a mesophilic biogas reactor and sequenced on the Illumina MiSeq and Nanopore GridION sequencing platforms. Metagenome data analysis resulted in identifying 375 metagenome-assembled viral genomes (MAVGs). Two-thirds of the classified sequences were only assigned to the superkingdom Viruses and the remaining third to the family Siphoviridae, followed by Myoviridae, Podoviridae, Tectiviridae, and Inoviridae. The metavirome showed a close relationship to the phage genomes that infect members of the classes Clostridia and Bacilli. Using publicly available biogas metagenomic data, a fragment recruitment approach showed the widespread distribution of the MAVGs studied in other biogas microbiomes. In particular, phage sequences from mesophilic microbiomes were highly similar to the phage sequences of this study. Accordingly, the virus particle enrichment approach and metavirome sequencing provided additional genome sequence information for novel virome members, thus expanding the current knowledge of viral genetic diversity in biogas reactors.BMBF, 031L0103, de.NBI - Partner - MetaProtServBMBF, 031A532B, de.NBI - Etablierungsphase - Koordinierungs- und Administrationseinheit - CAU - GeschäftsstelleBMBF, 031A533A, de.NBI - Etablierungsphase - Leistungszentrum - BiGi - Bioinformatisches Resourcenzentrum für mikrobielle Genomforschung in Biotechnologie und MedizinBMBF, 031A533B, de.NBI - Etablierungsphase - Leistungszentrum - BiGi - Bioinformatisches Resourcenzentrum für mikrobielle Genomforschung in Biotechnologie und MedizinBMBF, 031A534A, de.NBI - Etablierungsphase - Leistungszentrum - BioInfra.Prot - Bioinformatik der ProteomikBMBF, 031A535A, de.NBI - Etablierungsphase - Leistungszentrum CiBi - Zentrum für integrative BioinformatikBMBF, 031A537A, de.NBI - Etablierungsphase - Heidelberg Center for Human Bioinformatics - HD-HuB - Humane Genetik und Genomik, Humane Mikrobiomik, systematische Phänotypisierung humaner ZellenBMBF, 031A537B, de.NBI - Etablierungsphase-European Molecular Biology Laboratory-HD-HUBBMBF, 031A537C, de.NBI - Etablierungsphase - Heidelberg Center for Human Bioinformatics - HD-HuBBMBF, 031A537D, de.NBI - Etablierungsphase - Heidelberg Center for Human Bioinformatics - HD-HuB - Humane Genetik und Genomik, Humane Metagenomik, systematische Phänotypisierung humaner Zellen, Epigenetik und de.NBI Cloud Standort Heidelberg/BerlinBMBF, 031A538A, de.NBI - Etablierungsphase - Leistungszentrum: RBC - RNA Bioinformati

A systematic map of studies testing the relationship between temperature and animal reproduction

Funding: This work was funded by the European Society for Evolution (which funds a Special Topic Network on Evolutionary Ecology of Thermal Fertility Limits to CF, AB, RRS and TARP), the Natural Environment Research Council (NE/P002692/1 to TARP, AB and RRS, NE/X011550/1 to LRD and TARP), the Biotechnology and \Biological Sciences Research Council (BB/W016753/1 to AB, TARP and RRS) and a Heisenberg fellowship from the German Research Foundation (FR 2973/11-1 to CF).1. Exposure to extreme temperatures can negatively affect animal reproduction, by disrupting the ability of individuals to produce any offspring (fertility), or the number of offspring produced by fertile individuals (fecundity). This has important ecological consequences, because reproduction is the ultimate measure of population fitness: a reduction in reproductive output lowers the population growth rate and increases the extinction risk. Despite this importance, there have been no large‐scale summaries of the evidence for effect of temperature on reproduction. 2. We provide a systematic map of studies testing the relationship between temperature and animal reproduction. We systematically searched for published studies that statistically test for a direct link between temperature and animal reproduction, in terms of fertility, fecundity or indirect measures of reproductive potential (gamete and gonad traits). 3. Overall, we collated a large and rich evidence base, with 1654 papers that met our inclusion criteria, encompassing 1191 species. 4. The map revealed several important research gaps. Insects made up almost half of the dataset, but reptiles and amphibians were uncommon, as were non‐arthropod invertebrates. Fecundity was the most common reproductive trait examined, and relatively few studies measured fertility. It was uncommon for experimental studies to test exposure of different life stages, exposure to short‐term heat or cold shock, exposure to temperature fluctuations, or to independently assess male and female effects. Studies were most often published in journals focusing on entomology and pest control, ecology and evolution, aquaculture and fisheries science, and marine biology. Finally, while individuals were sampled from every continent, there was a strong sampling bias towards mid‐latitudes in the Northern Hemisphere, such that the tropics and polar regions are less well sampled. 5. This map reveals a rich literature of studies testing the relationship between temperature and animal reproduction, but also uncovers substantial missing treatment of taxa, traits, and thermal regimes. This database will provide a valuable resource for future quantitative meta‐analyses, and direct future studies aiming to fill identified gaps.Publisher PDFPeer reviewe

Application of magnetisable carriers in production of biogas

Biomasse, inklusive Biogas, war im Jahr 2008 die am meisten genutzte regenerative Energiequelle. Am weltweiten Energieverbrauch in Höhe von 492 EJ lag der Anteil von Energie aus Biomasse bei 10,2 %. Bis zum Jahr 2050 könnte die Energieproduktion aus Biomasse auf 100 bis 300 EJ pro Jahr ausgebaut werden. In der Optimierung von Verfahren zur Produktion von Biogas liegt demnach ein großes Potential zur Erhöhung des Anteils regenerativer Energiequellen am Energieverbrauch. In der Biogasproduktion ist die Nutzung einfacher Rührkesselreaktoren (CSTRs) mit Abstand am weitesten verbreitet. Die Leistung dieser Reaktoren ist durch Ausspülen von Mikroorganismen begrenzt, da sie über keine Mechanismen zu deren Rückhaltung verfügen. Eine Möglichkeit, die Rückhaltung von Mikroorganismen auch beim CSTR zu erreichen, ist der Einsatz magnetisierbarer Aufwuchsträger. Solche Aufwuchsträger können einfach mit Hilfe magnetischer Kräfte aus dem Ablauf des Reaktors abgetrennt und in den Reaktor zurückgeführt werden. Ziel dieser Arbeit war der Vergleich verschiedener neuartiger magnetisierbarer Aufwuchsträger aus Schaumglas hinsichtlich der Immobilisierung von Mikroorganismen. Es sollten Rückschlüsse zur Kinetik der Ausbildung eines Biofilms auf den Aufwuchsträgern in einem kontinuierlich betriebenen CSTR gewonnen und der Nutzen des Einsatzes der Aufwuchsträger hinsichtlich der methanogenen Leistung eines CSTRs ermittelt werden. Bei Aufwuchsträgern, die im CSTR inkubiert wurden, konnten bis zu 34626,0 x 109 16s rRNA Genkopien (Archaeen und Bakterien) je g Aufwuchsträger festgestellt werden. Der Anteil methanogener Mikroorganismen (Archaeen) erreichte dabei bis zu 62,77 %, in der flüssigen Phase kam dieser Anteil nie über 3 % hinaus. Mit Hilfe der intensiv besiedelten Aufwuchsträger war es möglich, die hydraulische Verweilzeit des CSTRs auf bis zu 4,65 Tage zu reduzieren. Die Leistung des Reaktors wurde dabei kaum beeinflusst und erreichte übliche Werte: die Methanausbeute lag bei 0,344 Norm-L goS-1 bei einer Raumbelastung in Höhe von 6,42 goS L-1 d-1. Die Leistung eines Kontrollreaktors ohne Aufwuchsträger ist dagegen bei einer hydraulischen Verweilzeit von 8,48 Tagen vollkommen zusammengebrochen. Die Reduzierung der hydraulischen Verweilzeit wurde durch eine gezielte Verdünnung des eingesetzten Substrats Zuckerrübensilage erreicht, der oTS-Gehalt im Substrat wurde von 17,3 auf 3,0 % FM gesenkt. Es war ebenfalls möglich, einen CSTR nur mit Hilfe von auf magnetisierbaren Aufwuchsträgern eingebrachten Mikroorganismen mit einer Raumbelastung in Höhe von 3,66 goS L-1 d-1 in Betrieb zu nehmen, eine Anlaufzeit war nicht notwendig. Dabei wurde eine Methanausbeute in Höhe von 0,378 Norm-L goS-1 erreicht. Diese Ergebnisse zeigen das hohe Potential der untersuchten magnetisierbaren Aufwuchs-träger. Durch die Reduzierung der hydraulischen Verweilzeit und dem damit verbundenen hohen Volumendurchsatz wird die Nutzung von Substraten mit einem geringeren Organikgehalt, z.B. Gülle, bei deutlich höheren Raumbelastungen möglich. Der Einsatz eines mit magnetisierbaren Aufwuchsträgern ausgestatteten CSTRs in der Abwasserbehandlung wäre ebenfalls vorstellbar. Die Verwendung der Aufwuchsträger in einer Pilotanlage könnte unmittelbar erfolgen und erscheint sehr erfolgsversprechend.With a share of 10.2 % in the total global primary energy supply (492 EJ) the use of bioenergy, including biogas, was the most important source of renewable energy in 2008. Until 2050 the annual production of energy from biomass might be enhanced up to 300 EJ. According to that, the improvement of technologies used for the production of biogas includes a high potential in increasing the share of renewable energy in total energy supply. The use of continuously stirred tank reactors (CSTRs) is mostly spread in the production of biogas. The performance of these reactor is limited by losses of microorganisms hence it does not possess installations for retention of microorganisms. A possible retention technique for the CSTR is the use of magnetic carriers for microorganisms. These carriers are easy to remove from reactor effluent by magnetic forces and can be put back into the reactor. Aim of this work was to compare different kinds of novel magnetic carriers made of foam glass according to the retention of microorganisms. Furthermore kinetics of the formation of biofilm on magnetic carriers incubated in a continuously operated CSTR and the effect on the methanogenic performance of a CSTR caused by the use of magnetic carriers should be investigated. Magnetic carriers incubated in a CSTR showed a microbial population (Archaea and Bacteria) up to 34626.0 x 109 16s rRNA gen copy numbers (g carrier)-1. The share of methanogenic microorganisms (Archaea) increased up to 62.77 %, in the liquid phase of the reactor these share never exceeded 3 %. It was possible to decrease the hydraulic retention time of the CSTR up to 4.65 days by means of the carriers. The methanogenic performance was hardly influenced in that case and achieved usual values: the reactor reached methane yields of 0.344 Norm-L goS-1 at an organic loading rate of 6.42 goS L-1 d-1. The performance of a control reactor without magnetic carriers dropped to zero at a hydraulic retention time of 8.48 days. The redurction of the hydraulic retention time was realized by diluting the used substrate sugar beet silage, the organic dry matter content of the substrate was decreased from 17.3 to 3.0 % FM. Furthermore it was possible to start-up a CSTR with a microbial community only consisting of microorganisms immobilised on the carriers. The organic loading rate was 3.66 goS L-1 d-1 right from the start, there was no need for a start-up period. The methane yield reached a value of 0.378 Norm-L goS-1. These results confirm a high potential of the magnetic carriers. By reducing the hydraulic retention time that is associated with a high volume flow the use of substrates showing lower organic solids contents, e.g. slurries, is possible at considerably higher organic loading rates. The use of a CSTR equipped with magnetic carriers in wastewater treatment is conceivable, too. The application of the carriers in a pilot plant could follow immediately and seems to be very promising

Vergärung von nachwachsenden Rohstoffen im Aufstromverfahren : Schlussbericht zum Vorhaben im Auftrag der Fachagentur Nachwachsende Rohstoffe e.V.

[no abstract available

Influence of the Initial Sugar Concentration and Supplementation with Yeast Extract on Succinic Acid Fermentation in a Lactose-Based Medium

The aim of this study was to investigate the production of succinic acid from lactose concentrate, a by-product of cheese-making, using Actinobacillus succinogenes and Basfia succiniciproducens. Although the ability of these strains to metabolize different sugars is already known, their application in the conversion of lactose bears high potential for optimization. With regard to B. succiniciproducens, this approach is completely novel. In particular, the effect of the medium’s sugar concentration as well as the ability of its supplementation with yeast extract to prevent a lack of essential nutrient proteins and vitamins was examined. Lactose-based media containing sugar concentrations of between 20 and 65 g L−1 and 5 g L−1 of yeast extract were fermented, with both strains showing comparable performances. The best results in terms of succinic acid yield and acid concentration—0.57 g g−1 initial sugar and 23 g L−1—were achieved at an initial sugar concentration of 43 g L−1. The necessity of yeast extract was demonstrated using the sugar-optimized medium without supplementation. As a result, the yield and concentration of succinic acid dropped to 0.34 g g−1 and 13 g L−1 and the sugar consumption decreased from more than 99 to less than 55%. Therefore, the supplementation amount of 5 g L−1 of yeast extract can be regarded as well-balanced.Peer Reviewe

Draft genome sequence of a new Oscillospiraceae bacterium isolated from anaerobic digestion of biomass

Here, we present the genome sequence and annotation of the novel bacterial strain HV4-5-C5C, which may represent a new genus within the family Oscillospiraceae (order Eubacteriales). This strain is a potential keystone species in the hydrolysis of complex polymers during anaerobic digestion of biomass.We acknowledge funding by the European Union through the BioRoboost project, H2020-NMBP-TR-IND-2018-2020/BIOTEC-01-2018 (Coordination and Support Action), project ID 210491758. This study was also funded by the German Federal Ministry of Economic Affairs and Energy (grant numbers KF 2050830SA4, KF 3400701SA4, and KF 2112205SA4). Finally, we are grateful for open access funding by the publication fund of the Technische Universität Dresden.Peer reviewe