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List of works by Alex Copeland

A bioinformatician's guide to metagenomics

scientific article

A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea

scientific article

Assembling the marine metagenome, one cell at a time

scientific article

Comparative genome structure, secondary metabolite, and effector coding capacity across Cochliobolus pathogens

scientific article

Comparison of the complete genome sequences of Pseudomonas syringae pv. syringae B728a and pv. tomato DC3000

scientific article

Complete Genome Sequence of Lactobacillus buchneri NRRL B-30929, a Novel Strain from a Commercial Ethanol Plant ⬇️

scientific article published on May 27, 2011

Complete Genome Sequence of Paenibacillus strain Y4.12MC10, a Novel Paenibacillus lautus strain Isolated from Obsidian Hot Spring in Yellowstone National Park

scientific article published on 27 July 2012

Complete Genome Sequences of Caldicellulosiruptor sp. Strain Rt8.B8, Caldicellulosiruptor sp. Strain Wai35.B1, and "Thermoanaerobacter cellulolyticus"

scientific article published on 14 May 2015

Complete Genome sequence of Burkholderia phymatum STM815(T), a broad host range and efficient nitrogen-fixing symbiont of Mimosa species

scientific article

Complete genome of the cellulolytic ruminal bacterium Ruminococcus albus 7.

scientific article

Complete genome sequence and updated annotation of Desulfovibrio alaskensis G20.

scientific article published on 17 June 2011

Complete genome sequence of Acetohalobium arabaticum type strain (Z-7288)

scientific article

Complete genome sequence of Acidaminococcus fermentans type strain (VR4).

scientific article

Complete genome sequence of Acidimicrobium ferrooxidans type strain (ICP).

scientific article

Complete genome sequence of Actinosynnema mirum type strain (101).

scientific article

Complete genome sequence of Alicyclobacillus acidocaldarius type strain (104-IA)

scientific article

Complete genome sequence of Aminobacterium colombiense type strain (ALA-1).

scientific article

Complete genome sequence of Anabaena variabilis ATCC 29413.

scientific article

Complete genome sequence of Anaerococcus prevotii type strain (PC1).

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Complete genome sequence of Archaeoglobus profundus type strain (AV18)

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Complete genome sequence of Arcobacter nitrofigilis type strain (CI)

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Complete genome sequence of Atopobium parvulum type strain (IPP 1246)

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Complete genome sequence of Beutenbergia cavernae type strain (HKI 0122).

scientific article

Complete genome sequence of Brachybacterium faecium type strain (Schefferle 6-10).

scientific article

Complete genome sequence of Brachyspira murdochii type strain (56-150)

scientific article

Complete genome sequence of Capnocytophaga ochracea type strain (VPI 2845).

scientific article

Complete genome sequence of Catenulispora acidiphila type strain (ID 139908).

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Complete genome sequence of Chitinophaga pinensis type strain (UQM 2034).

scientific article

Complete genome sequence of Conexibacter woesei type strain (ID131577).

scientific article

Complete genome sequence of Coraliomargarita akajimensis type strain (04OKA010-24).

scientific article

Complete genome sequence of Cryptobacterium curtum type strain (12-3)

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Complete genome sequence of Denitrovibrio acetiphilus type strain (N2460)

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Complete genome sequence of Desulfarculus baarsii type strain (2st14).

scientific article

Complete genome sequence of Desulfohalobium retbaense type strain (HR(100)).

scientific article

Complete genome sequence of Desulfomicrobium baculatum type strain (X)

scientific article

Complete genome sequence of Desulfotomaculum acetoxidans type strain (5575)

scientific article

Complete genome sequence of Desulfurispirillum indicum strain S5(T).

scientific article

Complete genome sequence of Dyadobacter fermentans type strain (NS114)

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Complete genome sequence of Eggerthella lenta type strain (IPP VPI 0255).

scientific article

Complete genome sequence of Ferroglobus placidus AEDII12DO

scientific article

Complete genome sequence of Geodermatophilus obscurus type strain (G-20)

scientific article

Complete genome sequence of Gordonia bronchialis type strain (3410).

scientific article

Complete genome sequence of Haliangium ochraceum type strain (SMP-2)

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Complete genome sequence of Halogeometricum borinquense type strain (PR3)

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Complete genome sequence of Halomicrobium mukohataei type strain (arg-2)

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Complete genome sequence of Halorhabdus utahensis type strain (AX-2)

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Complete genome sequence of Haloterrigena turkmenica type strain (4k)

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Complete genome sequence of Hirschia baltica type strain (IFAM 1418(T))

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Complete genome sequence of Jonesia denitrificans type strain (Prevot 55134)

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Complete genome sequence of Kangiella koreensis type strain (SW-125).

scientific article

Complete genome sequence of Kribbella flavida type strain (IFO 14399).

scientific article

Complete genome sequence of Kytococcus sedentarius type strain (541).

scientific article

Complete genome sequence of Leptotrichia buccalis type strain (C-1013-b).

scientific article

Complete genome sequence of Marinomonas posidonica type strain (IVIA-Po-181(T)).

scientific article published on 27 September 2012

Complete genome sequence of Marivirga tractuosa type strain (H-43) ⬇️

scientific article

Complete genome sequence of Meiothermus ruber type strain (21)

scientific article

Complete genome sequence of Meiothermus silvanus type strain (VI-R2)

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Complete genome sequence of Mesorhizobium australicum type strain (WSM2073(T)).

scientific article

Complete genome sequence of Mesorhizobium australicum type strain (WSM2073T)

Complete genome sequence of Mesorhizobium ciceri bv. biserrulae type strain (WSM1271(T))

scientific article

Complete genome sequence of Mesorhizobium opportunistum type strain WSM2075(T.).

scientific article

Complete genome sequence of Methanocorpusculum labreanum type strain Z

scientific article

Complete genome sequence of Methanoculleus marisnigri Romesser et al. 1981 type strain JR1

scientific article

Complete genome sequence of Nakamurella multipartita type strain (Y-104).

scientific article

Complete genome sequence of Paenibacillus sp. strain JDR-2.

scientific article

Complete genome sequence of Pedobacter heparinus type strain (HIM 762-3).

scientific article

Complete genome sequence of Polynucleobacter necessarius subsp. asymbioticus type strain (QLW-P1DMWA-1(T)).

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Complete genome sequence of Rhizobium leguminosarum bv trifolii strain WSM2304, an effective microsymbiont of the South American clover Trifolium polymorphum

scientific article

Complete genome sequence of Rhizobium leguminosarum bv. trifolii strain WSM1325, an effective microsymbiont of annual Mediterranean clovers

scientific article (publication date: 15 June 2010)

Complete genome sequence of Rhodospirillum rubrum type strain (S1).

scientific article

Complete genome sequence of Rhodothermus marinus type strain (R-10).

scientific article

Complete genome sequence of Saccharomonospora viridis type strain (P101).

scientific article

Complete genome sequence of Sanguibacter keddieii type strain (ST-74)

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Complete genome sequence of Sebaldella termitidis type strain (NCTC 11300).

scientific article

Complete genome sequence of Segniliparus rotundus type strain (CDC 1076)

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Complete genome sequence of Slackia heliotrinireducens type strain (RHS 1)

scientific article

Complete genome sequence of Sphaerobacter thermophilus type strain (S 6022)

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Complete genome sequence of Spirosoma linguale type strain (1)

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Complete genome sequence of Stackebrandtia nassauensis type strain (LLR-40K-21).

scientific article

Complete genome sequence of Staphylothermus hellenicus P8

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Complete genome sequence of Staphylothermus marinus Stetter and Fiala 1986 type strain F1

scientific article

Complete genome sequence of Streptobacillus moniliformis type strain (9901)

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Complete genome sequence of Sulfurospirillum deleyianum type strain (5175).

scientific article

Complete genome sequence of Thauera aminoaromatica strain MZ1T

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Complete genome sequence of Thermaerobacter marianensis type strain (7p75a)

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Complete genome sequence of Thermanaerovibrio acidaminovorans type strain (Su883).

scientific article

Complete genome sequence of Thermobispora bispora type strain (R51).

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Complete genome sequence of Thermocrinis albus type strain (HI 11/12)

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Complete genome sequence of Thermosphaera aggregans type strain (M11TL)

scientific article

Complete genome sequence of Tolumonas auensis type strain (TA 4)

scientific article published on 23 September 2011

Complete genome sequence of Veillonella parvula type strain (Te3)

scientific article

Complete genome sequence of the Antarctic Halorubrum lacusprofundi type strain ACAM 34.

scientific article published on 10 September 2016

Complete genome sequence of the Medicago microsymbiont Ensifer (Sinorhizobium) medicae strain WSM419

scientific article (publication date: 28 January 2010)

Complete genome sequence of the Thermophilic Bacterium Exiguobacterium sp. AT1b

scientific article

Complete genome sequence of the aerobic, heterotroph Marinithermus hydrothermalis type strain (T1(T)) from a deep-sea hydrothermal vent chimney

scientific article

Complete genome sequence of the aquatic bacterium Runella slithyformis type strain (LSU 4(T)).

scientific article

Complete genome sequence of the cellulose-degrading bacterium Cellulosilyticum lentocellum

scientific article

Complete genome sequence of the facultatively chemolithoautotrophic and methylotrophic alpha Proteobacterium Starkeya novella type strain (ATCC 8093(T)).

scientific article

Complete genome sequence of the facultatively chemolithoautotrophic and methylotrophic alpha Proteobacterium Starkeya novella type strain (ATCC 8093T)

Complete genome sequence of the filamentous gliding predatory bacterium Herpetosiphon aurantiacus type strain (114-95(T)).

scientific article

Complete genome sequence of the halophilic and highly halotolerant Chromohalobacter salexigens type strain (1H11(T)).

scientific article

Complete genome sequence of the melanogenic marine bacterium Marinomonas mediterranea type strain (MMB-1(T))

scientific article

Complete genome sequence of the orange-red pigmented, radioresistant Deinococcus proteolyticus type strain (MRP(T)).

scientific article

Complete genome sequence of the sulfate-reducing firmicute Desulfotomaculum ruminis type strain (DL(T))

scientific article published on 11 December 2012

Complete genome sequence of the thermophilic, hydrogen-oxidizing Bacillus tusciae type strain (T2) and reclassification in the new genus, Kyrpidia gen. nov. as Kyrpidia tusciae comb. nov. and emendation of the family Alicyclobacillaceae da Costa and

scientific article

Convergent losses of decay mechanisms and rapid turnover of symbiosis genes in mycorrhizal mutualists

scientific article

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

scientific article published in February 2018

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

article

Deinococcus geothermalis: the pool of extreme radiation resistance genes shrinks

scientific article

Draft Genome Sequence of Frankia sp. Strain DC12, an Atypical, Noninfective, Ineffective Isolate from Datisca cannabina

scientific article

Draft genome sequence of Marinobacterium rhizophilum CL-YJ9T (DSM 18822T), isolated from the rhizosphere of the coastal tidal-flat plant Suaeda japonica

scientific article

Draft genome sequences of 10 strains of the genus exiguobacterium

scientific article

Ectomycorrhizal ecology is imprinted in the genome of the dominant symbiotic fungus Cenococcum geophilum.

scientific article

Erratum to: Complete genome sequence of Atopobium parvulum type strain (IPP 1246).

scientific article published on 15 June 2010

Genome Sequence of Arenibacter algicola Strain TG409, a Hydrocarbon-Degrading Bacterium Associated with Marine Eukaryotic Phytoplankton

scientific article published on 04 August 2016

Genome Sequence of Halomonas sp. Strain MCTG39a, a Hydrocarbon-Degrading and Exopolymeric Substance-Producing Bacterium

scientific article published on 16 July 2015

Genome Sequence of Marinobacter sp. Strain MCTG268 Isolated from the Cosmopolitan Marine Diatom Skeletonema costatum

scientific article published on 08 September 2016

Genome Sequence of Oceanicola sp. Strain MCTG156(1a), Isolated from a Scottish Coastal Phytoplankton Net Sample

scientific article published on 10 August 2017

Genome Sequence of Polycyclovorans algicola Strain TG408, an Obligate Polycyclic Aromatic Hydrocarbon-Degrading Bacterium Associated with Marine Eukaryotic Phytoplankton

scientific article

Genome Sequence of Porticoccus hydrocarbonoclasticus Strain MCTG13d, an Obligate Polycyclic Aromatic Hydrocarbon-Degrading Bacterium Associated with Marine Eukaryotic Phytoplankton

scientific article published on 18 June 2015

Genome Sequence of Roseovarius sp. Strain MCTG156(2b) Isolated from a Phytoplankton Net Trawl on the Scottish West Coast

scientific article published on 31 August 2017

Genome Sequence of the ethene- and vinyl chloride-oxidizing actinomycete Nocardioides sp. strain JS614

scientific article

Genome sequence and analysis of the soil cellulolytic actinomycete Thermobifida fusca YX

scientific article published on 5 January 2007

Genome sequence of "Pedosphaera parvula" Ellin514, an aerobic Verrucomicrobial isolate from pasture soil

scientific article

Genome sequence of Victivallis vadensis ATCC BAA-548, an anaerobic bacterium from the phylum Lentisphaerae, isolated from the human gastrointestinal tract

scientific article

Genome sequence of the chemoheterotrophic soil bacterium Saccharomonospora cyanea type strain (NA-134(T)).

scientific article published on 30 September 2013

Genome sequence of the ocean sediment bacterium Saccharomonospora marina type strain (XMU15(T))

scientific article

Genome sequence of the soil bacterium Saccharomonospora azurea type strain (NA-128(T)).

scientific article

Genome sequence of the verrucomicrobium Opitutus terrae PB90-1, an abundant inhabitant of rice paddy soil ecosystems

scientific article

Genomic differentiation among wild cyanophages despite widespread horizontal gene transfer

scientific article

High quality draft genome sequence of Leucobacter chironomi strain MM2LB(T) (DSM 19883(T)) isolated from a Chironomus sp. egg mass

scientific article published on 8 May 2015

High quality permanent draft genome sequence of Phaseolibacter flectens ATCC 12775(T), a plant pathogen of French bean pods

scientific article

High-quality draft genome sequence of Flavobacterium suncheonense GH29-5(T) (DSM 17707(T)) isolated from greenhouse soil in South Korea, and emended description of Flavobacterium suncheonense GH29-5(T)

scientific article published on 16 June 2016

High-quality permanent draft genome sequence of the extremely osmotolerant diphenol degrading bacterium Halotalea alkalilenta AW-7(T), and emended description of the genus Halotalea

scientific article

High-resolution phylogenetic microbial community profiling

scientific article published on 9 February 2016

Horizontal gene transfer and gene dosage drives adaptation to wood colonization in a tree pathogen

scientific article

Metagenomes and metatranscriptomes from boreal potential and actual acid sulfate soil materials

scientific article published on 16 October 2019

Metagenomic analysis of microbial consortium from natural crude oil that seeps into the marine ecosystem offshore Southern California

scientific article

Metatranscriptomic Sequencing of a Cyanobacterial Soil-Surface Consortium with and without a Diverse Underlying Soil Microbiome

scientific article published on 02 January 2020

Microbial Community Structure and Functional Potential in Cultivated and Native Tallgrass Prairie Soils of the Midwestern United States

scientific article published in 2018

Microbial metagenomes and metatranscriptomes during a coastal phytoplankton bloom

scientific article published on 22 July 2019

Microbiomes of Velloziaceae from phosphorus-impoverished soils of the campos rupestres, a biodiversity hotspot

scientific article published on 31 July 2019

Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

scientific article

Multiple syntrophic interactions in a terephthalate-degrading methanogenic consortium

scientific article

Next generation sequencing data of a defined microbial mock community

scientific article

Non-contiguous finished genome sequence and contextual data of the filamentous soil bacterium Ktedonobacter racemifer type strain (SOSP1-21).

scientific article

Non-contiguous finished genome sequence of Aminomonas paucivorans type strain (GLU-3).

scientific article

Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data ⬇️

scientific article published on May 5, 2013

Omega: an overlap-graph de novo assembler for metagenomics.

scientific article published on 19 June 2014

One bacterial cell, one complete genome

scientific article

Permanent draft genome sequence of Comamonas testosteroni KF-1

scientific article published on 30 May 2013

Phylogenetic and phylogenomic overview of the Polyporales

scientific article (publication date: 11 August 2013)

Proteome specialization of anaerobic fungi during ruminal degradation of recalcitrant plant fiber

scientific article published on 14 September 2020

Sequencing of multiple clostridial genomes related to biomass conversion and biofuel production

scientific article

Shotgun metagenome data of a defined mock community using Oxford Nanopore, PacBio and Illumina technologies

scientific article published on 26 November 2019

The DNA sequence and biology of human chromosome 19

scientific article

The Paleozoic Origin of Enzymatic Lignin Decomposition Reconstructed from 31 Fungal Genomes

scientific article

The Source and Evolutionary History of a Microbial Contaminant Identified Through Soil Metagenomic Analysis

scientific article published on 21 February 2017

The fast changing landscape of sequencing technologies and their impact on microbial genome assemblies and annotation

scientific article

The genome of wine yeast Dekkera bruxellensis provides a tool to explore its food-related properties

scientific article published on 14 May 2012

The genome sequence of Methanohalophilus mahii SLP(T) reveals differences in the energy metabolism among members of the Methanosarcinaceae inhabiting freshwater and saline environments

scientific article

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