Ivan Liachko

Phages with a broad host range are common across ecosystems - Nature Microbiology Proximity-ligation-based sequencing from 111 samples and 5 environments reveals that a substantial proportion of phages infect multiple species.

In this great new paper, the authors use metagenomic Hi-C to show that #phage with broad host range are fairly common, contrary to the prevailing view on their biology. Cutting edge methods like Hi-C are shedding light on our blind spots in the microbial world.

Join us at the Microbiome Innovation One Health Conference in Oxford on Sept 15! @ivanliachko.bsky.social will present how ProxiMeta™ maps microbes, viruses, plasmids & resistance genes, bringing clarity to complexity across human, animal and environmental health.

🧬 Important Slug News!
Researchers assembled a chromosome-scale #genome for Deroceras laeve using Proximo Hi-C and @pacbio.bsky.social - making it a useful model for study of #genomics, #evolution, and slimyness... Congrats to Alfredo Varela-Echavarría & team!

🔗 academic.oup.com/g3journal/ad...

The Future of Phage Therapy: Can Bacteriophages Replace Antibiotics? | Witness how Phase Genomics revolutionizes DNA analysis through Hi-C technology, enabling breakthroughs in microbiome research, cancer diagnostics, and bacteriophage therapeutics to combat antibiotic r...

Glad I saw @ivanliachko.bsky.social present on mind-blowing applications of proximity ligation, including metagenomics--linking plasmids, phages and genomes across microbiomes. I see major impact for precision #phagetherapy (and #onehealth)
Godspeed @phasegenomics.bsky.social
tinyurl.com/yaubcrpt

A fungus among us: Proximo Hi‑C + @pacbio.bsky.social HiFi produced telomere‑to‑telomere genomes for VCG‑01111/01112, uncovering 4 accessory chromosomes, >3.6 My divergence, SIX6 and novel effectors—pinpointing drivers of high virulence. www.mdpi.com/2309-608X/11...

She doesn’t need a hero, she is the hero we need. 🤩

Comparative genomics of the parasite Trichomonas vaginalis reveals genes involved in spillover from birds to humans - Nature Communications The sexually transmitted human parasite Trichomonas vaginalis belongs to a clade of host-switching trichomonads that parasitize mammals, birds, livestock, and pets. Here the authors describe a chromos...

New study uses long-read + @phasegenomics.bsky.social Hi-C to assemble chromosome-scale #genome of Trichomonas vaginalis and bird-infecting relatives, revealing key genes tied to bird-to-human spillover. Congrats to Jane Carlton, ‪@mikeschatz.bsky.social‬ and team!

Structural variants often go undetected by traditional cytogenetics. A new review in Genes shows how Genomic Proximity Mapping™ (GPM) detects complex SVs right from FFPE. Read more Dr. Patrick Gonzales at the University of Kansas Medical Center: www.mdpi.com/2073-4425/16...

When sample quality is low, insight usually is too. Not with Genomic Proximity Mapping™ (GPM).

Phase Genomics’ GPM works on #FFPE and mosaic samples. It’s just one assay, no metaphase prep, and no tradeoff in resolution. A new preprint shows how: www.medrxiv.org/content/10.1...

Comprehensive cytogenetics from any sample type—including #FFPE—in just one assay:

CytoTerra® delivers genome-wide SV detection with no culture, no HMW DNA, and results in as little as 5 days. Stop by booth 23 & check out our presentations to see it in action at #CGC2025.

This is very cool

🌸 Chromosome-scale genome of Petunia hybrida assembled with Proximo Hi-C, PacBio HiFi, Illumina & Bionano. 7 pseudochromosomes, 99.8% BUSCO with Hi-C being key for resolving repeats. A powerful resource for Solanaceae genetics & breeding. #genome #HiC

📄 hubs.la/Q03ypPmb0

By popular demand by you, #genomics people - this buffer is super useful for Hi-C and we'll give you some if you ask for it, no strings attached.

Haplotype-resolved chromosome-level genome sequence of Elsholtzia splendens (Nakai ex F.Maek.) - Scientific Data Scientific Data - Haplotype-resolved chromosome-level genome sequence of Elsholtzia splendens (Nakai ex F.Maek.)

🌱🧬Researchers released haplotype-resolved, chromosome-level genomes of Eupatorium splendens - a plant known for medicinal properties and ability to thrive in contaminated soils. A powerful resource for studying stress adaptation & secondary metabolism. www.nature.com/articles/s41...

🍓 Meet ‘Yuexin’ - a next-gen #strawberry with smoother texture, better shelf life, and sweeter aroma. Scientists have released its fully phased #genome, revealing the genetic secrets behind these tasty traits. Proximo #HiC +
@pacbio.bsky.social for the win! 🧬

🔗 hubs.la/Q03tZvZD0

YouTube video by The Biotech Startups Podcast | Excedr Growth Without Venture Capital: The Bootstrapped Biotech Playbook | Ivan Liachko (Part 4/4)

“It’s not a brute force technology. It’s a clever technology.”
— Jon Chee, CEO @ Excedr

In the finale of The Biotech Startups Podcast, Jon and @ivanliachko.bsky.social unpack how smart science powers Phase Genomics' impact in cancer research, metagenomics & more👇
youtu.be/fqL6ZvS2sNQ?...

New💩🚰👨‍🔬 study in #EnvMicrobiology uses shotgun & Hi-C metagenomics to reveal rapid shifts in antibiotic resistance genes and their microbial hosts, highlighting the dynamic nature of resistomes. #AMR #Metagenomics

🔗https://hubs.la/Q03tZ1Jf0

TBT: 🧬 Throwing it back to a cool study from Aug 2021! Using proximity ligation, this paper explores the two-compartment genome of R. irregularis, a model arbuscular mycorrhizal symbiont, using Proximo #HiC and @nanoporetech.com sequencing. @Blunt_Microbe

🔗 Full study: hubs.la/Q03tZ6Ch0

YouTube video by The Biotech Startups Podcast | Excedr How 3D Genome Mapping is Changing Everything We Know About DNA | Ivan Liachko (Part 3/4)

“If we don’t commercialize this, it’s going to be a crime against science.” - @ivanliachko.bsky.social, Founder and CEO

Hear how a postdoc aha moment became a platform accelerating #microbiome research, tackling #AMR & more on the Biotech Startups Podcast: www.youtube.com/watch?v=U2UG...

Unleashing the wild side of lupins! 🌕🐺🍃
Researchers built #genomes of rough-seeded lupins - L. cosentinii & L. digitatus - revealing unique #gene expansions tied to stress resilience and seed traits. A howling good resource for legume breeding! #HiC
🔗 hubs.la/Q03v1F2c0

Can’t see the full picture with karyotyping or microarrays?

New research in
@Genes_MDPI
shows how Genomic Proximity Mapping (GPM) detects structural variants other tools miss - translocations, insertions & CN-LOH - even from FFPE!
hubs.la/Q03v2s2N0

#Cancer #Cytogenetics

#ASMicrobe ❤️ LA // @tallcuppajoe.bsky.social @bielleogy.bsky.social @gfahurbottino.bsky.social @jlgoff.bsky.social @lebetimonas.bsky.social @dportik.bsky.social @jcamthrash.bsky.social @ahoiching.bsky.social @germjuggler.bsky.social @scottnguyen.bsky.social

Phase Genomics Launches ProxiMeta™ Starter and Elite Bundles to Expand Access to Genome-Resolved Metagenomics

Phase Genomics is making Hi-C metagenomics simpler than ever with the new ProxiMeta™ Starter and Elite Bundles. These ready-to-run solutions combine sequencing, no-code bioinformatics & expert support into streamlined packages. #microbiome #phage

More in @BioSpace: www.biospace.com/press-releas...

Very excited to be at American Society for Microbiology #ASMicrobe meeting. I’m here with a large suitcase of, what could it be? Science swag and also just science. Come talk to us about transforming the future of #metagenomics and #phage research.

@phasegenomics.bsky.social (booth 1109)

Just launched at #ASMicrobe 2025: the new ready-to-use ProxiMeta™ Starter and Elite bundles for Hi-C metagenomics.

Visit booth #1109 to chat w/ the team about how the new bundles can accelerate your research, or discover more online & book a call here: info.phasegenomics.com/proximeta-bu...

ICYMI: A jam-packed spring edition of Phasebook, available in your inbox and on the web. You’ll find all the latest on our Hi-C tech and updates from the Phase Genomics team here: info.phasegenomics.com/phasebook

Catch Phase Genomics CEO @ivanliachko.bsky.social at NIAMRRE 2025 for an insightful panel discussion on #AMR in today’s shifting landscape on Thurs, May 15.

Find the full details and register here: exchange.niamrre.org/2025niamrrea...

Another impressive paper, the authors used Proximo Hi-C data to build a allohexaploid wheatgrass genome.

I hear the first author is defending tomorrow 🐦, so read this paper. Also, this is what happens when leadership learns how to use Canva...

Cool paper on #duckweed #genomes, now with free gratuitous frog 🐸.