Unlocking the Genomic Taxonomy of the Prochlorococcus Collective.


:Prochlorococcus is the most abundant photosynthetic prokaryote on our planet. The extensive ecological literature on the Prochlorococcus collective (PC) is based on the assumption that it comprises one single genus comprising the species Prochlorococcus marinus, containing itself a collective of ecotypes. Ecologists adopt the distributed genome hypothesis of an open pan-genome to explain the observed genomic diversity and evolution patterns of the ecotypes within PC. Novel genomic data for the PC prompted us to revisit this group, applying the current methods used in genomic taxonomy. As a result, we were able to distinguish the five genera: Prochlorococcus, Eurycolium, Prolificoccus, Thaumococcus, and Riococcus. The novel genera have distinct genomic and ecological attributes.


Microb Ecol


Microbial ecology


Tschoeke D,Salazar VW,Vidal L,Campeão M,Swings J,Thompson F,Thompson C




Has Abstract


2020-10-01 00:00:00














  • Composition and Activity of Marine Alkane-Degrading Bacterial Communities in the Transition from Suboxic to Anoxic Conditions.

    abstract::The impact of the oxygen supply rate (OSR) on the metabolic activity and on the composition of hexadecane-degrading bacterial communities in a quasi-anoxic milieu (nominal DOT = 0%) was studied in continuous cultures containing intertidal sediment. The dilution rate was kept constant at 0.035 h-1. The OSR was stepwise...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Berthe-Corti L,Bruns A

    更新日期:2001-07-01 00:00:00

  • Haloarchaea from the Andean Puna: Biological Role in the Energy Metabolism of Arsenic.

    abstract::Biofilms, microbial mats, and microbialites dwell under highly limiting conditions (high salinity, extreme aridity, pH, and elevated arsenic concentration) in the Andean Puna. Only recent pioneering studies have described the microbial diversity of different Altiplano lakes and revealed their unexpectedly diverse micr...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Ordoñez OF,Rasuk MC,Soria MN,Contreras M,Farías ME

    更新日期:2018-10-01 00:00:00

  • New insights into the ecological interaction between grape berry microorganisms and Drosophila flies during the development of sour rot.

    abstract::In this work, we studied the ecological interactions between grape berry microorganisms and Drosophila sp. flies involved in sour rot disease during grape ripening. After veráison the total microbial counts of grape berries affected by sour rot increased from about 2 log CFU/g of berries to more than 7 log CFU/g. Berr...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Barata A,Santos SC,Malfeito-Ferreira M,Loureiro V

    更新日期:2012-08-01 00:00:00

  • Different Interspecies Electron Transfer Patterns during Mesophilic and Thermophilic Syntrophic Propionate Degradation in Chemostats.

    abstract::Propionate is one of the major intermediates in anaerobic digestion of organic waste to CO2 and CH4. In methanogenic environments, propionate is degraded through a mutualistic interaction between symbiotic propionate oxidizers and methanogens. Although temperature heavily influences the microbial ecology and performan...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Chen YT,Zeng Y,Wang HZ,Zheng D,Kamagata Y,Narihiro T,Nobu MK,Tang YQ

    更新日期:2020-07-01 00:00:00

  • Geosmithia-Ophiostoma: a New Fungus-Fungus Association.

    abstract::In Europe as in North America, elms are devastated by Dutch elm disease (DED), caused by the alien ascomycete Ophiostoma novo-ulmi. Pathogen dispersal and transmission are ensured by local species of bark beetles, which established a novel association with the fungus. Elm bark beetles also transport the Geosmithia fun...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Pepori AL,Bettini PP,Comparini C,Sarrocco S,Bonini A,Frascella A,Ghelardini L,Scala A,Vannacci G,Santini A

    更新日期:2018-04-01 00:00:00

  • Feeding Honeybee Colonies with Honeybee-Specific Lactic Acid Bacteria (Hbs-LAB) Does Not Affect Colony-Level Hbs-LAB Composition or Paenibacillus larvae Spore Levels, Although American Foulbrood Affected Colonies Harbor a More Diverse Hbs-LAB Community.

    abstract::The main current methods for controlling American Foulbrood (AFB) in honeybees, caused by the bacterial pathogen Paenibacillus larvae, are enforced incineration or prophylactic antibiotic treatment, neither of which is fully satisfactory. This has led to an increased interest in the natural relationships between the p...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Lamei S,Stephan JG,Nilson B,Sieuwerts S,Riesbeck K,de Miranda JR,Forsgren E

    更新日期:2020-04-01 00:00:00

  • Microbiota Diversity Within and Between the Tissues of Two Wild Interbreeding Species.

    abstract::Understanding the role of microbiota as reproductive barriers or sources of adaptive novelty in the fundamental biological phenomenon of speciation is an exciting new challenge necessitating exploration of microbiota variation in wild interbreeding species. We focused on two interbreeding cyprinid species, Chondrostom...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Guivier E,Martin JF,Pech N,Ungaro A,Chappaz R,Gilles A

    更新日期:2018-04-01 00:00:00

  • Persistence and recycling of bioinsecticidal Bacillus thuringiensis subsp. israelensis spores in contrasting environments: evidence from field monitoring and laboratory experiments.

    abstract::Sprays of commercial preparations of the bacterium Bacillus thuringiensis subsp. israelensis are widely used for the control of mosquito larvae. Despite an abundant literature on B. thuringiensis subsp. israelensis field efficiency on mosquito control, few studies have evaluated the fate of spores in the environment a...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Duchet C,Tetreau G,Marie A,Rey D,Besnard G,Perrin Y,Paris M,David JP,Lagneau C,Després L

    更新日期:2014-04-01 00:00:00

  • Variability in Bradyrhizobium japonicum and B. elkanii seven years after introduction of both the exotic microsymbiont and the soybean host in a cerrados soil.

    abstract::The plasticity of rhizobial genomes is far greater than previously thought, with complex genomic recombination events that may be accelerated by the often stressful environmental conditions of the tropics. This study aimed at evaluating changes in soybean rhizobia due to adaptation to inhospitable environmental condit...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Batista JS,Hungria M,Barcellos FG,Ferreira MC,Mendes IC

    更新日期:2007-02-01 00:00:00

  • The Bacterial Community of the Foliose Macro-lichen Peltigera frigida Is More than a Mere Extension of the Microbiota of the Subjacent Substrate.

    abstract::Lichens host highly diverse microbial communities, with bacteria being one of the most explored groups in terms of their diversity and functioning. These bacteria could partly originate from symbiotic propagules developed by many lichens and, perhaps more commonly and depending on environmental conditions, from differ...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Leiva D,Fernández-Mendoza F,Acevedo J,Carú M,Grube M,Orlando J

    更新日期:2021-01-06 00:00:00

  • Viable real-time PCR in environmental samples: can all data be interpreted directly?

    abstract::Selective nucleic acid intercalating dyes--ethidium monoazide (EMA) and propidium monoazide (PMA)--represent one of the most successful recent approaches to detect viable cells (as defined by an intact cell membrane) by PCR and have been effectively evaluated in different microorganisms. However, some practical limita...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Fittipaldi M,Codony F,Adrados B,Camper AK,Morató J

    更新日期:2011-01-01 00:00:00

  • The biogeography of ammonia-oxidizing bacterial communities in soil.

    abstract::Although ammonia-oxidizing bacteria (AOB) are likely to play a key role in the soil nitrogen cycle, we have only a limited understanding of how the diversity and composition of soil AOB communities change across ecosystem types. We examined 23 soils collected from across North America and used sequence-based analyses ...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Fierer N,Carney KM,Horner-Devine MC,Megonigal JP

    更新日期:2009-08-01 00:00:00

  • Reliability of muramic acid as a bacterial biomarker is influenced by methodological artifacts from streptomycin.

    abstract::The muramic acid (MurA) assay is a powerful tool for the detection and quantification of bacteria with no need to enrich samples by culturing. However, the analysis of MurA in mixed biological and environmental matrices is potentially more complex than analysis in isolated bacterial cells. In this study, we employed o...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Liang C,Read HW,Balser TC

    更新日期:2009-04-01 00:00:00

  • A radioisotope assay for the quantification of hydrocarbon biodegradation potential in environmental samples.

    abstract::An enrichment culture method is described for quantifying the activity of hydrocarbon oxidizing bacteria in water and sediments. Application of the procedure indicated that the hydrocarbon oxidizing potential of environmental samples reflects the hydrocarbon burden of the area, the ability of the microflora to utilize...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Caparello DM,Larock PA

    更新日期:1975-03-01 00:00:00

  • Labile and recalcitrant organic matter utilization by river biofilm under increasing water temperature.

    abstract::Microbial biofilms in rivers contribute to the decomposition of the available organic matter which typically shows changes in composition and bioavailability due to their origin, seasonality, and watershed characteristics. In the context of global warming, enhanced biofilm organic matter decomposition would be expecte...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Ylla I,Romaní AM,Sabater S

    更新日期:2012-10-01 00:00:00

  • Isolation, Characterization, and Metal Response of Novel, Acid-Tolerant Penicillium spp. from Extremely Metal-Rich Waters at a Mining Site in Transbaikal (Siberia, Russia).

    abstract::The role of fungi in metal cycling in acidic environments has been little explored to date. In this study, two acid-tolerant and metal-resistant Penicillium isolates, strains ShG4B and ShG4C, were isolated from a mine site in the Transbaikal area of Siberia (Russia). Waters at the mine site were characterized by extre...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Glukhova LB,Frank YA,Danilova EV,Avakyan MR,Banks D,Tuovinen OH,Karnachuk OV

    更新日期:2018-11-01 00:00:00

  • Relationship of atmospheric pollution characterized by gas (NO2) and particles (PM10) to microbial communities living in bryophytes at three differently polluted sites (rural, urban, and industrial).

    abstract::Atmospheric pollution has become a major problem for modern societies owing to its fatal effects on both human health and ecosystems. We studied the relationships of nitrogen dioxide atmospheric pollution and metal trace elements contained in atmospheric particles which were accumulated in bryophytes to microbial comm...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Meyer C,Gilbert D,Gaudry A,Franchi M,Nguyen HV,Fabure J,Bernard N

    更新日期:2010-02-01 00:00:00

  • Hypolithic microbial community of quartz pavement in the high-altitude tundra of central Tibet.

    abstract::The hypolithic microbial community associated with quartz pavement at a high-altitude tundra location in central Tibet is described. A small-scale ecological survey indicated that 36% of quartz rocks were colonized. Community profiling using terminal restriction fragment length polymorphism revealed no significant dif...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Wong FK,Lacap DC,Lau MC,Aitchison JC,Cowan DA,Pointing SB

    更新日期:2010-11-01 00:00:00

  • Anomalies in the enumeration of starved bacteria on culture media containing nalidic acid and tetracycline.

    abstract::Culturable counts of antibiotic resistant, genetically engineeredPseudomonas fluorescens were determined on antibiotic-containing plate count agar during starvation in water. Prior to starvation, colony counts obtained on all media separated into two groups. The mean of the colony counts on plate count agar with or wi...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Genthner FJ,Upadhyay J,Campbell RP,Genthner BR

    更新日期:1990-12-01 00:00:00

  • Population dynamics of Gluconacetobacter diazotrophicus in sugarcane cultivars and its effect on plant growth.

    abstract::Different experiments have estimated that the contribution of biological nitrogen fixation (BNF) is largely variable among sugarcane cultivars. Which bacteria are the most important in sugarcane-associated BNF is unknown. However, Gluconacetobacter diazotrophicus has been suggested as a strong candidate responsible fo...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Muñoz-Rojas J,Caballero-Mellado J

    更新日期:2003-11-01 00:00:00

  • Corrosion of iron by iodide-oxidizing bacteria isolated from brine in an iodine production facility.

    abstract::Elemental iodine is produced in Japan from underground brine (fossil salt water). Carbon steel pipes in an iodine production facility at Chiba, Japan, for brine conveyance were found to corrode more rapidly than those in other facilities. The corroding activity of iodide-containing brine from the facility was examined...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Wakai S,Ito K,Iino T,Tomoe Y,Mori K,Harayama S

    更新日期:2014-10-01 00:00:00

  • Ecology of bacterial communities in the schistosomiasis vector snailBiomphalaria glabrata.

    abstract::The internal colony-forming bacterial flora of the schistosome intermediate host snailBiomphalaria glabrata (Say) has been characterized in ca. 500 individual snails from Puerto Rico, Guadeloupe, and St. Lucia, and from laboratory aquaria. Freshly captured wild snails harbor 2-40×10(6) CFU·g(-1), and healthy aquarium ...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Ducklow HW,Clausen K,Mitchell R

    更新日期:1981-09-01 00:00:00

  • Trophic Ecology of the Tropical Pacific Sponge Mycale grandis Inferred from Amino Acid Compound-Specific Isotopic Analyses.

    abstract::Many sponges host abundant and active microbial communities that may play a role in the uptake of dissolved organic matter (DOM) by the sponge holobiont, although the mechanism of DOM uptake and metabolism is uncertain. Bulk and compound-specific isotopic analysis of whole sponge, isolated sponge cells, and isolated s...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Shih JL,Selph KE,Wall CB,Wallsgrove NJ,Lesser MP,Popp BN

    更新日期:2020-02-01 00:00:00

  • Quantifying Ostreid herpesvirus (OsHV-1) genome copies and expression during transmission.

    abstract::Understanding the pathogenic potential of a new pathogen strain or a known pathogen in a new locale is crucial for management of disease in both wild and farmed animals. The Ostreid herpesvirus-1 (OsHV-1), a known pathogen of early-life-stage Pacific oysters, Crassostrea gigas, has been associated with mortalities of ...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Burge CA,Friedman CS

    更新日期:2012-04-01 00:00:00

  • Detecting Associations Between Ciliated Protists and Prokaryotes with Culture-Independent Single-Cell Microbiomics: a Proof-of-Concept Study.

    abstract::Symbioses between prokaryotes and microbial eukaryotes, particularly ciliated protists, have been studied for a long time. Nevertheless, researchers have focused only on a few host genera and species, mainly due to difficulties in cultivating the hosts, and usually have considered a single symbiont at a time. Here, we...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Rossi A,Bellone A,Fokin SI,Boscaro V,Vannini C

    更新日期:2019-07-01 00:00:00

  • Presence of acyl-homoserine lactone in subtidal biofilm and the implication in larval behavioral response in the polychaete Hydroides elegans.

    abstract::Quorum sensing (QS) signals have been considered to play important roles in biofilm development and in the attractiveness of biofilms to higher organisms in marine ecosystem. In this study, bacterial QS signalsacylated homoserine lactone derivatives (AHLs) were detected in 2-, 4-, and 6-day-old subtidal biofilms by us...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Huang YL,Dobretsov S,Ki JS,Yang LH,Qian PY

    更新日期:2007-08-01 00:00:00

  • Plant Community Richness Mediates Inhibitory Interactions and Resource Competition between Streptomyces and Fusarium Populations in the Rhizosphere.

    abstract::Plant community characteristics impact rhizosphere Streptomyces nutrient competition and antagonistic capacities. However, the effects of Streptomyces on, and their responses to, coexisting microorganisms as a function of plant host or plant species richness have received little attention. In this work, we characteriz...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Essarioui A,LeBlanc N,Kistler HC,Kinkel LL

    更新日期:2017-07-01 00:00:00

  • Effect of Root Diameter on the Selection and Network Interactions of Root-Associated Bacterial Microbiomes in Robinia pseudoacacia L.

    abstract::The high plasticity of root morphology, physiology, and function influences root-associated microbiomes. However, the variation in root-associated microbiome diversity and structures in response to root diameter at different root depths remains poorly understood. Here, we selected black locust (Robinia pseudoacacia L....

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Zai X,Luo W,Bai W,Li Y,Xiao X,Gao X,Wang E,Wei G,Chen W

    更新日期:2021-01-15 00:00:00

  • Fermentation Ability of Gut Microbiota of Wild Japanese Macaques in the Highland and Lowland Yakushima: In Vitro Fermentation Assay and Genetic Analyses.

    abstract::Wild Japanese macaques (Macaca fuscata Blyth) living in the highland and lowland areas of Yakushima are known to have different diets, with highland individuals consuming more leaves. We aim to clarify whether and how these differences in diet are also reflected by gut microbial composition and fermentation ability. T...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Hanya G,Tackmann J,Sawada A,Lee W,Pokharel SS,de Castro Maciel VG,Toge A,Kuroki K,Otsuka R,Mabuchi R,Liu J,Hatakeyama M,Yamasaki E,von Mering C,Shimizu-Inatsugi R,Hayakawa T,Shimizu KK,Ushida K

    更新日期:2020-08-01 00:00:00

  • Comparable Ecological Processes Govern the Temporal Succession of Gut Bacteria and Microeukaryotes as Shrimp Aged.

    abstract::Understanding the rules that govern the successions of gut microbiota is prerequisite for testing general ecological theories and sustaining a desirable microbiota. However, the ignorance of microeukaryotes raises the question of whether gut microeukaryotes are assembled according to the same rules as bacteria. We tra...

    journal_title:Microbial ecology

    pub_type: 杂志文章


    authors: Xiong J,Li X,Yan M,Lu J,Qiu Q,Chen J

    更新日期:2020-11-01 00:00:00