References

CARD 2023: expanded curation, support for machine learning, and resistome prediction at the comprehensive antibiotic resistance database

10.1093/nar/gkac920 · 2023 · External reference

Effect of periodontitis and periodontal therapy on oral and gut microbiota

10.1177/00220345231222800 · 2024 · External reference

Chapter 3 - strategies for taxonomic and functional annotation of metagenomes

2018 · External reference

Performance of forty-one microbial source tracking methods: a twenty-seven lab evaluation study

10.1016/j.watres.2012.12.046 · 2013 · External reference

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

10.1038/s41587-019-0209-9 · 2019 · External reference

BBMerge - accurate paired shotgun read merging via overlap

10.1371/journal.pone.0185056 · 2017 · External reference

Bats: important reservoir hosts of emerging viruses

10.1128/cmr.00017-06 · 2006 · External reference

DADA2: high-resolution sample inference from Illumina amplicon data

10.1038/nmeth.3869 · 2016 · External reference

Identification of mobile genetic elements with geNomad

10.1038/s41587-023-01953-y · 2024 · External reference

Diversity in biofilm formation and production of curli fimbriae and cellulose of Salmonella typhimurium strains of different origin in high and low nutrient medium

10.1080/08927014.2011.648927 · 2012 · External reference

Fastp: an ultra-fast all-in-one FASTQ preprocessor

10.1093/bioinformatics/bty560 · 2018 · External reference

16S rRNA gene copy number variation and sink biomass shape source contributions in community-wide microbial source tracking

10.1186/s13765-026-01095-0 · 2026 · External reference

Quantitative assessment of microbial dynamics in livestock manure and municipal wastewater treatment plants

10.1186/s13765-025-01050-5 · 2025 · External reference

Rapid and precise alignment of raw reads against redundant databases with KMA

10.1186/s12859-018-2336-6 · 2018 · External reference

Zoonotic bacterial pathogens in bats samples around the world: a scoping review

10.1016/j.prevetmed.2024.106135 · 2024 · External reference

Using the class 1 integron-integrase gene as a proxy for anthropogenic pollution

10.1038/ismej.2014.226 · 2015 · External reference

The fate of sulfonamide resistance genes and anthropogenic pollution marker intI1 after discharge of wastewater into a pristine river stream

2023 · External reference

Into the deep: evaluation of SourceTracker for assessment of faecal contamination of coastal waters

10.1016/j.watres.2016.02.029 · 2016 · External reference

A meta-analysis of the bovine gastrointestinal tract microbiota

10.1093/femsec/fiz072 · 2019 · External reference

Prodigal: prokaryotic gene recognition and translation initiation site identification

10.1186/1471-2105-11-119 · 2010 · External reference

Groundwater monitoring system and groundwater policy in relation to unified water resource management in Korea

10.2166/wp.2020.171 · 2020 · External reference

The thermal preference and the selection of hibernacula in seven cave-dwelling bats

10.11614/ksl.2014.47.4.258 · 2014 · External reference

Bayesian community-wide culture-independent microbial source tracking

10.1038/nmeth.1650 · 2011 · External reference

MEGAHIT v1.0: a fast and scalable metagenome assembler driven by advanced methodologies and community practices

10.1016/j.ymeth.2016.02.020 · 2016 · External reference

Efficiently constructing complete genomes with CycloneSEQ to fill gaps in bacterial draft assemblies

10.46471/gigabyte.154 · 2025 · External reference

Assessing accuracy and specificity of faecal source library for microbial source-tracking, using SourceTracker as case study

10.1093/bioadv/vbaf103 · 2024 · External reference

Cutadapt removes adapter sequences from high-throughput sequencing reads

10.14806/ej.17.1.200 · 2011 · External reference

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

10.1093/nar/gks1219 · 2013 · External reference

MOB-suite: software tools for clustering, reconstruction and typing of plasmids from draft assemblies

2018 · External reference

VSEARCH: a versatile open source tool for metagenomics

10.7717/peerj.2584 · 2016 · External reference

The life hidden inside caves: ecological and economic importance of Bat Guano

10.1155/2020/9872532 · 2020 · External reference

Microbiological monitoring and classification of karst springs

10.1007/s12665-013-2508-7 · 2014 · External reference

A comprehensive database of human and livestock fecal microbiome for community-wide microbial source tracking: a case study in South Korea

10.1186/s13765-024-00915-5 · 2024 · External reference

Application of SourceTracker for accurate identification of fecal pollution in recreational freshwater: a double-blinded study

10.1021/acs.est.7b05401 · 2018 · External reference

MMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets

10.1038/nbt.3988 · 2017 · External reference

Fecal pollution: new trends and challenges in microbial source tracking using next-generation sequencing

10.1111/1462-2920.14281 · 2018 · External reference

16S-Pipeline: a comprehensive web-based platform for end-to-end 16S rRNA amplicon sequencing analysis

10.71150/jm.2603014 · 2026 · External reference

Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy

10.1128/aem.00062-07 · 2007 · External reference

Biofilm formation by enteric pathogens and its role in plant colonization and persistence

10.1111/1751-7915.12186 · 2014 · External reference

Vertebrate host phylogeny influences gut archaeal diversity

10.1038/s41564-021-00980-2 · 2021 · External reference

VFDB 2025: an integrated resource for exploring anti-virulence compounds

10.1093/nar/gkae968 · 2025 · External reference

Whole-genome sequencing reveals the population structure and genetic diversity of Salmonella typhimurium ST34 and ST19 lineages

10.1007/s12275-024-00170-9 · 2024 · External reference