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  1. Article ; Online: Defluorination of PFAS by Acidimicrobium sp. strain A6 and potential applications for remediation.

    Jaffé, Peter R / Huang, Shan / Park, Jinhee / Ruiz-Urigüen, Melany / Shuai, Weitao / Sima, Matthew

    Methods in enzymology

    2024  Volume 696, Page(s) 287–320

    Abstract: Acidimicrobium sp. strain A6 is a recently discovered autotrophic bacterium that is capable of oxidizing ammonium while reducing ferric iron and is relatively common in acidic iron-rich soils. The genome of Acidimicrobium sp. strain A6 contains sequences ...

    Abstract Acidimicrobium sp. strain A6 is a recently discovered autotrophic bacterium that is capable of oxidizing ammonium while reducing ferric iron and is relatively common in acidic iron-rich soils. The genome of Acidimicrobium sp. strain A6 contains sequences for several reductive dehalogenases, including a gene for a previously unreported reductive dehalogenase, rdhA. Incubations of Acidimicrobium sp. strain A6 in the presence of perfluorinated substances, such as PFOA (perfluorooctanoic acid, C
    MeSH term(s) Biodegradation, Environmental ; Fluorocarbons/metabolism ; Fluorocarbons/chemistry ; Bacterial Proteins/metabolism ; Bacterial Proteins/genetics ; Caprylates/metabolism ; Halogenation ; Alkanesulfonic Acids/metabolism ; Alkanesulfonic Acids/chemistry ; Oxidation-Reduction
    Chemical Substances Fluorocarbons ; Bacterial Proteins ; Caprylates ; perfluorooctanoic acid (947VD76D3L) ; Alkanesulfonic Acids
    Language English
    Publishing date 2024-02-15
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S.
    ISSN 1557-7988
    ISSN (online) 1557-7988
    DOI 10.1016/bs.mie.2024.01.013
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Biodegradation of PFOA in microbial electrolysis cells by Acidimicrobiaceae sp. strain A6.

    Ruiz-Urigüen, Melany / Shuai, Weitao / Huang, Shan / Jaffé, Peter R

    Chemosphere

    2022  Volume 292, Page(s) 133506

    Abstract: Acidimicrobiaceae sp. strain A6 (A6), is an anaerobic autotrophic bacterium capable of oxidizing ammonium ( ... ...

    Abstract Acidimicrobiaceae sp. strain A6 (A6), is an anaerobic autotrophic bacterium capable of oxidizing ammonium (NH
    Language English
    Publishing date 2022-01-04
    Publishing country England
    Document type Journal Article
    ZDB-ID 120089-6
    ISSN 1879-1298 ; 0045-6535 ; 0366-7111
    ISSN (online) 1879-1298
    ISSN 0045-6535 ; 0366-7111
    DOI 10.1016/j.chemosphere.2021.133506
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    In stock of ZB MED Cologne/Königswinter

    Zs.A 2540: Show issues Location:
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  3. Article: Biodegradation of PFOA in microbial electrolysis cells by Acidimicrobiaceae sp. strain A6

    Ruiz-Urigüen, Melany / Shuai, Weitao / Huang, Shan / Jaffé, Peter R.

    Elsevier Ltd Chemosphere. 2022 Apr., v. 292

    2022  

    Abstract: Acidimicrobiaceae sp. strain A6 (A6), is an anaerobic autotrophic bacterium capable of oxidizing ammonium (NH₄⁺) while reducing ferric iron and is also able to defluorinate PFAS under these growth conditions. A6 is exoelectrogenic and can grow in ... ...

    Abstract Acidimicrobiaceae sp. strain A6 (A6), is an anaerobic autotrophic bacterium capable of oxidizing ammonium (NH₄⁺) while reducing ferric iron and is also able to defluorinate PFAS under these growth conditions. A6 is exoelectrogenic and can grow in microbial electrolysis cells (MECs) by using the anode as the electron acceptor in lieu of ferric iron. Therefore, cultures of A6 amended with perfluorooctanoic acid (PFOA) were incubated in MECs to investigate its ability to defluorinate PFAS in such reactors. Results show a significant decrease in PFOA concentration after 18 days of operation, while producing current and removing NH₄⁺. The buildup of fluoride and shorter chain perfluorinated products was detected only in MECs with applied potential, active A6, and amended with PFOA, confirming the biodegradation of PFOA in these systems. This work sets the stage for further studies on the application of A6-based per- and polyfluorinated alkyl substances (PFAS) bioremediation in microbial electrochemical systems for water treatment.
    Keywords Acidimicrobiaceae ; ammonium ; anodes ; bacteria ; biodegradation ; bioremediation ; electrochemistry ; electrolysis ; fluorides ; iron ; perfluorooctanoic acid ; water treatment
    Language English
    Dates of publication 2022-04
    Publishing place Elsevier Ltd
    Document type Article
    ZDB-ID 120089-6
    ISSN 1879-1298 ; 0045-6535 ; 0366-7111
    ISSN (online) 1879-1298
    ISSN 0045-6535 ; 0366-7111
    DOI 10.1016/j.chemosphere.2021.133506
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    In stock of ZB MED Cologne/Königswinter

    Zs.A 2540: Show issues Location:
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  4. Article: Denitrification of Nitric Oxide Using Hollow Fiber Membrane Bioreactor; Effect of Nitrate and Nitric Oxide Loadings on the Reactor Performance and Microbiology

    Razaviarani, Vahid / Ruiz-Urigüen, Melany / Jaffé, Peter R

    Waste and biomass valorization. 2019 July, v. 10, no. 7

    2019  

    Abstract: Nitric oxide (NO) removal from a gas stream containing ~500 ppm NO was studied in a hollow fiber membrane (HFM) bioreactor. Compared to other biological NO removal methods the HFM bioreactor achieved NO removal rates that were as good if not better, of ... ...

    Abstract Nitric oxide (NO) removal from a gas stream containing ~500 ppm NO was studied in a hollow fiber membrane (HFM) bioreactor. Compared to other biological NO removal methods the HFM bioreactor achieved NO removal rates that were as good if not better, of up to 92% NO removal, under comparable loadings and reactor size. Results showed that a wastewater stream containing organic carbon can be used as the electron donor to reduce the NO. Hence, combining biological NO treatment with treatment of a wastewater containing organic carbon has may be an effective overall cost-reducing strategy. The effect of different nitrate (NO 3−) concentrations on the NO reduction rate was also evaluated, and results showed that NO 3− does enhance the NO removal rate. The reactor’s performance was studied under six different NO:NO 3− loading regimes and the NO removal rate as well as the microbial denitrifier community in the reactor was tracked. Specifically, the relevant genes responsible for each denitrification step were tracked during each different NO:NO 3− loading regime to the reactor. Results showed that the denitrifying microbial community adjust rapidly to changes in the different N loadings, but overall the performance of the reactor is robust and can withstand such variability in terms of NO, NO 3− and organic carbon removal.
    Keywords denitrification ; denitrifying microorganisms ; genes ; membrane bioreactors ; microbial communities ; nitrates ; nitric oxide ; nitrogen ; organic carbon ; pollution load ; wastewater
    Language English
    Dates of publication 2019-07
    Size p. 1989-2000.
    Publishing place Springer Netherlands
    Document type Article
    ZDB-ID 2541900-6
    ISSN 1877-265X ; 1877-2641
    ISSN (online) 1877-265X
    ISSN 1877-2641
    DOI 10.1007/s12649-018-0223-z
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  5. Article ; Online: Electrode Colonization by the Feammox Bacterium

    Ruiz-Urigüen, Melany / Shuai, Weitao / Jaffé, Peter R

    Applied and environmental microbiology

    2018  Volume 84, Issue 24

    Abstract: ... ...

    Abstract Acidimicrobiaceae
    MeSH term(s) Actinobacteria/growth & development ; Ammonium Compounds/metabolism ; Anaerobiosis ; Bacteria/classification ; Bacteria/metabolism ; Electrodes/microbiology ; Heterotrophic Processes ; Iron/metabolism ; Microbiota/physiology ; Nitrogen/analysis ; Oxidation-Reduction ; Soil/chemistry ; Soil Microbiology ; Wetlands
    Chemical Substances Ammonium Compounds ; Soil ; Iron (E1UOL152H7) ; Nitrogen (N762921K75)
    Language English
    Publishing date 2018-11-30
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 223011-2
    ISSN 1098-5336 ; 0099-2240
    ISSN (online) 1098-5336
    ISSN 0099-2240
    DOI 10.1128/AEM.02029-18
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

    Zs.B 201: Show issues Location:
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  6. Article ; Online: Effect of a semi-automated fermentation system on the physical and chemical characteristics of Theobroma cacao L. grown in the northern Ecuadorian Amazon

    Burbano-Cachiguango, Remigio Armando / Abreu-Naranjo, Reinier / Caicedo-Vargas, Carlos Estuardo / Ramírez-Romero, César Andrés / Calero-Cárdenas, Andrés Santiago / Llumiquinga-Marcillo, Erika Magaly / Ruiz-Urigüen, Melany

    Food Measure. 2023 Feb., v. 17, no. 1 p.337-345

    2023  

    Abstract: Ecuador is one of the main cocoa exporters in Latin America and the top producer of high-quality fine cocoa (~ 65%) in the world. However, there is a lack of knowledge regarding the physicochemical properties of cacao grown locally in the Ecuadorian ... ...

    Abstract Ecuador is one of the main cocoa exporters in Latin America and the top producer of high-quality fine cocoa (~ 65%) in the world. However, there is a lack of knowledge regarding the physicochemical properties of cacao grown locally in the Ecuadorian Amazon region, since these properties have seldom been studied. In addition, it is necessary to improve the postharvest process adapted to the environmental conditions of the Amazon region. This study evaluated the effect of a semi-automatic fermentation system on the main physical and chemical characteristics [weight of 100 beans, cotyledon pH, fermentation percentage, total fat content, and total polyphenol content (TPC)] of Theobroma cacao L. (Nacional and Super Árbol). A full factorial design 2² was used to determine the influence of the factors studied: genotype and fermentation method (semi-automatic and Rohan boxes). The influence of the fermentation method had a highly significant (p < 0.05) positive effect, while the variety of cocoa did not significantly influence the fermentation percentage (p > 0.05). The cocoa beans fermented by the semi-automatic method met the quality parameters for fine aroma cocoa according to the Ecuadorian standard. This method achieved a 10% reduction in fermentation time compared to the traditional system (Rohan boxes). The values obtained for the cotyledon pH (5.85) and TPC (52.8 mg GAE/g) stand out as being directly related to the organoleptic characteristics of chocolate and its derivatives. This indicates that the semi-automatic method can be applied to both cocoa genotypes.
    Keywords Theobroma cacao ; chocolate ; cotyledons ; fermentation ; genotype ; lipid content ; odors ; pH ; polyphenols ; Amazonia ; Ecuador ; Latin America
    Language English
    Dates of publication 2023-02
    Size p. 337-345.
    Publishing place Springer US
    Document type Article ; Online
    ZDB-ID 2754612-3
    ISSN 2193-4134 ; 2193-4126
    ISSN (online) 2193-4134
    ISSN 2193-4126
    DOI 10.1007/s11694-022-01620-x
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  7. Article: Oxidation of ammonium by Feammox. Acidimicrobiaceae sp. A6 in anaerobic microbial electrolysis cells

    Ruiz-Urigüen, Melany / Steingart, Daniel / Jaffé, Peter R.

    Environmental science : Water research & technology

    2019  Volume 5, Issue 9, Page(s) 1582

    Language English
    Document type Article
    ZDB-ID 2833082-1
    ISSN 2053-1400
    Database Current Contents Nutrition, Environment, Agriculture

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    In stock of ZB MED Bonn / Germany

    Z 7947: Show issues

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  8. Article ; Online: Development and Characterization of a Modular CRISPR and RNA Aptamer Mediated Base Editing System.

    Collantes, Juan Carlos / Tan, Victor M / Xu, Huiting / Ruiz-Urigüen, Melany / Alasadi, Amer / Guo, Jingjing / Tao, Hanlin / Su, Chi / Tyc, Katarzyna M / Selmi, Tommaso / Lambourne, John J / Harbottle, Jennifer A / Stombaugh, Jesse / Xing, Jinchuan / Wiggins, Ceri M / Jin, Shengkan

    The CRISPR journal

    2021  Volume 4, Issue 1, Page(s) 58–68

    Abstract: Conventional CRISPR approaches for precision genome editing rely on the introduction of DNA double-strand breaks (DSB) and activation of homology-directed repair (HDR), which is inherently genotoxic and inefficient in somatic cells. The development of ... ...

    Abstract Conventional CRISPR approaches for precision genome editing rely on the introduction of DNA double-strand breaks (DSB) and activation of homology-directed repair (HDR), which is inherently genotoxic and inefficient in somatic cells. The development of base editing (BE) systems that edit a target base without requiring generation of DSB or HDR offers an alternative. Here, we describe a novel BE system called Pin-point
    MeSH term(s) Animals ; Aptamers, Nucleotide ; Bacteria/genetics ; Bacteria/metabolism ; CRISPR-Cas Systems ; Clustered Regularly Interspaced Short Palindromic Repeats ; Gene Editing ; Green Fluorescent Proteins/genetics ; HEK293 Cells ; Humans ; INDEL Mutation ; RNA Editing ; RNA, Guide, CRISPR-Cas Systems/genetics ; Recombinational DNA Repair ; Exome Sequencing
    Chemical Substances Aptamers, Nucleotide ; RNA, Guide, CRISPR-Cas Systems ; Green Fluorescent Proteins (147336-22-9)
    Language English
    Publishing date 2021-02-17
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 3017891-5
    ISSN 2573-1602 ; 2573-1599
    ISSN (online) 2573-1602
    ISSN 2573-1599
    DOI 10.1089/crispr.2020.0035
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