ArticleApplied and environmental microbiology2012
Dynamic viral populations in hypersaline systems as revealed by metagenomic assembly.
Article in Applied and environmental microbiology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 62 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
62 citing papers in PubMed, 110 citations in OpenAlex.
- Evolving strategies for virus discovery.Microbial genomics · 2026Review
- Viral Assemblages of a Hypersaline Estuary Show Divergent Responses to Freshwater and Temperature Disturbances.Environmental microbiology reports · 2026Article
- On the Low Abundance of Antibiotic Resistance Genes in Bacteriophage Genomes and Their Random Acquisition via Specialized Transduction.Genome biology and evolution · 2026Article
- Unveiling a Microbial Treasure Trove: Phylogenetic Diversity and Bioremediation Potential in a High-Altitude Andean Saline System.Microbial ecology · 2026Article
- Tools and approaches to study the human gut virome: from the bench to bioinformatics.mSystems · 2026Review
- The Zoetrope effect in phage evolution.Frontiers in microbiology · 2026Article
- Dispersal pathways and infection strategies within the Global Halophilic Virome.ISME communications · 2026Article
- Viral diversity of brine and precipitated halite of Tuz Lake, an inland hypersaline lake in Turkey.Archives of virology · 2025Article
- DNA extraction and virome processing methods strongly influence recovered human gut viral community characteristics.bioRxiv : the preprint server for biology · 2025Article
- Viruses and virus satellites of haloarchaea and their nanosized DPANN symbionts reveal intricate nested interactions.Nature microbiology · 2025Article
- Novel viruses of Haloquadratum walsbyi expand the known archaeal virosphere of hypersaline environments.The ISME journal · 2025Article
- Article
- DeePhafier: a phage lifestyle classifier using a multilayer self-attention neural network combining protein information.Briefings in bioinformatics · 2024Article
- Benchmarking bioinformatic virus identification tools using real-world metagenomic data across biomes.Genome biology · 2024Article
- Microbial diversity in polyextreme salt flats and their potential applications.Environmental science and pollution research international · 2024Review
- Diversity and connectedness of brine shrimp viruses in global hypersaline ecosystems.Science China. Life sciences · 2024Article
- Metagenomic comparisons reveal a highly diverse and unique viral community in a seasonally fluctuating hypersaline microbial mat.Microbial genomics · 2023Article
- PhaVIP: Phage VIrion Protein classification based on chaos game representation and Vision Transformer.Bioinformatics (Oxford, England) · 2023Article
- PhaTYP: predicting the lifestyle for bacteriophages using BERT.Briefings in bioinformatics · 2023Article
- AFrontiers in microbiology · 2023Article
2 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Viruses of the Bacteria and Archaea play important roles in microbial evolution and ecology, and yet viral dynamics in natural systems remain poorly understood. Here, we created de novo assemblies from 6.4 Gbp of metagenomic sequence from eight community viral concentrate samples, collected from 12 h to 3 years apart from hypersaline Lake Tyrrell (LT), Victoria, Australia. Through extensive manual assembly curation, we reconstructed 7 complete and 28 partial novel genomes of viruses and virus-like entities (VLEs, which could be viruses or plasmids). We tracked these 35 populations across the eight samples and found that they are generally stable on the timescale of days and transient on the timescale of years, with some exceptions. Cross-detection of the 35 LT populations in three previously described haloviral metagenomes was limited to a few genes, and most previously sequenced haloviruses were not detected in our samples, though 3 were detected upon reducing our detection threshold from 90% to 75% nucleotide identity. Similar results were obtained when we applied our methods to haloviral metagenomic data previously reported from San Diego, CA: 10 contigs that we assembled from that system exhibited a variety of detection patterns on a timescale of weeks to 1 month but were generally not detected in LT. Our results suggest that most haloviral populations have a limited or, possibly, a temporally variable global distribution. This study provides high-resolution insight into viral biogeography and dynamics and it places "snapshot" viral metagenomes, collected at a single time and location, in context.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.