B.SIGHT

Single-Cell Microbial Isolation & Strain Development

A high-throughput single-cell sorter and dispenser that isolates individual microbial cells down to 0.5 µm, even strict anaerobes, with image-based proof. As an alternative to plating, it recovers rare and previously uncultivable strains and it brings new convenience in every strain development project.

B.SIGHT
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BENEFITS

A Paradigm Shift in Culturomics and Strain Development

Legacy isolation methods are slow and resource intensive. B.SIGHT isolates single microbial cells down to 0.5 µm with image-based proof, recovering rare and previously unculturable species. It can work with strict anaerobes inside a glove box, and purity is verifiable from the first image.

Image-based single-cell dispensing

Image-based sorting discriminates single cells from doublets and debris in real time, confirming true single-cell dispensing and proving monoclonality for QA and to reviewers. Purity is verifiable from the first image, no streak-and-check cycle so cultures start monoclonal and pure.

Unbiased Recovery of Microbial Diversity

On a streak plate, fast growers win and rare organisms vanish. B.SIGHT gives every cell its own well, free of nutrient competition and antagonism, so fastidious and previously unculturable species finally get a chance to grow.

Capture strict anaerobes

The first benchtop single-cell dispenser designed for anaerobic work. It moves in and out of a glove box or anaerobic chamber, isolating oxygen-sensitive organisms under the exact conditions they need.

Find the high-value, low abundance strains

B.SIGHT isolates 1,000+ single microbes in under 30 minutes, reaching hundreds to thousands of verified isolates in a week. Screen more clones faster and rare taxa at <0.1% abundance, invisible to bulk culture, become deterministic to recover.

FROM THE LAB OF PROF. THOMAS CLAVEL, RWTH AACHEN, GERMANY

Anaerobic Single-Cell Dispensing Facilitates the Cultivation of Human Gut Bacteria

In their 2022 publication, Afrizal et al. developed and benchmarked an anaerobic, single-cell dispensing (SCD) workflow using the B.SIGHT™. SCD cut time-to-pure-culture from 17 to just 5 days and achieved colony growth in up to 87% of wells.

The workflow recovered 52.2% of total faecal OTU richness, far surpassing the 35.2% reached by traditional methods. It also captured 87% of abundant taxa (>1% relative abundance by 16S), representing 82% cumulative relative abundance of the faecal OTUs.

Using this workflow, they successfully isolated new taxa, including six high-priority "most wanted" taxa as defined by the Human Microbiome Project. This work demonstrates the B.SIGHT™'s potential to unlock previously inaccessible microbial diversity.

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  • Time to pure culture cut from 17 to 5 days

  • 87% colony growth across wells

  • 52.2% OTU richness recovered (vs. 35.2% with traditional methods)

  • 87% of abundant taxa (>1% relative abundance) captured

  • 82% cumulative relative abundance of faecal OTUs recovered

  • 6 novel taxa isolated, including high-priority "most wanted" strains

In short: The B.SIGHT™ workflow delivers faster, more efficient, and more comprehensive microbial isolation, enabling researchers to access valuable bacterial and yeast strains that are difficult to obtain with traditional approaches.

FEATURES

High Throughput Single Microbial Cell Isolation

Visual Proof of Clonality

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Every isolate begins as a single, imaged cell. Its clonal origin is traceable from the first well.

Selection of Fluorescent Cells

BSIGHT-2-Isolate-Fluorescent

Include or exclude labelled cells by green fluorescence (488 nm laser; 561 nm on request), alongside cell size and roundness. B.SIGHT sorts on multiple parameters at once, filtering out debris, doublets, and unlabelled cells before dispensing. Inquire for alternative fluorescence options.

Gentle, with Scalable Throughput

Figure 1 - B.SIGHT-1

The B.SIGHT isolates ~40 cells per minute at 97% single-cell efficiency. Unlike FACS, its low-shear dispensing preserves cell viability, reaching up to 80% of wells showing clonal growth.

Automation Ready

Automation-Ready

Once dispensing is complete, the B.SIGHT automatically releases the multiwell plate and opens the lid, allowing robotic arms to transfer it downstream for further processing in an automated workstation.

No Risk of Cross Contamination

Easy.On

The B.SIGHT fits in a biosafety cabinet and uses single-use cartridges to prevent cross-contamination between samples.

B.SIGHT_-_Accelerating_bacteria_transformation_and_cloning

Every isolate begins as a single, imaged cell. Its clonal origin is traceable from the first well.

BSIGHT-2-Isolate-Fluorescent

Include or exclude labelled cells by green fluorescence (488 nm laser; 561 nm on request), alongside cell size and roundness. B.SIGHT sorts on multiple parameters at once, filtering out debris, doublets, and unlabelled cells before dispensing. Inquire for alternative fluorescence options.

Figure 1 - B.SIGHT-1

The B.SIGHT isolates ~40 cells per minute at 97% single-cell efficiency. Unlike FACS, its low-shear dispensing preserves cell viability, reaching up to 80% of wells showing clonal growth.

Automation-Ready

Once dispensing is complete, the B.SIGHT automatically releases the multiwell plate and opens the lid, allowing robotic arms to transfer it downstream for further processing in an automated workstation.

Easy.On

The B.SIGHT fits in a biosafety cabinet and uses single-use cartridges to prevent cross-contamination between samples.

TESTIMONIALS

Trusted by Pharma, Industry, and Academia

“The instrument is handy and super user-friendly. The machine is ready to sort after a quick quality control step and adaption of sort settings. It sorts single cells reliably. Due to the usage of cartridges cross-contamination is not an issue anymore and cells are sorted alive and happy since they are kept in their needed buffer during the entire sort process. An in-built laser enables us to differentiate between fluorescently labelled and unlabelled cells, which makes the whole cell sorting process even more precise.”

“EPFL has developed a new pipeline named parSEQ, designed with the help of CYTENA's B.SIGHT, which aims to optimize the capture of sequence-function datasets from screened protein variant pools. With parSEQ, the functional data of each screened variant is effectively paired with its corresponding sequence data.”

“Our lab uses the B.SIGHT to sort microbial cells from environmental samples. It has a very intuitive user interface and the product managers at CYTENA have been very helpful in optimizing the parameters to suit our needs. It dispenses single cells gently with precision and can fill a 384-well plate in under an hour. The sorting speed and accuracy has greatly maximized our capacity to create large libraries of pure cultures.”

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KEY RESOURCES

Advancing Microbial Cell Discovery

B.SIGHT is used across microbiome research, microbial strain development, and synthetic biology workflows to isolate image-verified single bacteria and yeast at high throughput, enabling confident clonal cultivation and downstream genomic analysis. The following resources show how researchers put it to work.

PUBLICATION

Anaerobic single-cell dispensing facilitates the cultivation of human gut bacteria

Afrizal et al. developed and benchmarked an anaerobic, SCD workflow using B.SIGHT, cutting time to pure culture from 17 to 5 days, and achieved colony growth in up to 87% of wells.

 

 

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APPLICATION NOTE

Sequencing Single-cell Genomes of Uncultivated Bacteria in the Human Oral Microbiome

Label-free single-cell isolation with image-based detection, followed by miniaturized MDA to reduce reaction volumes and costs. Subsequent 16S rRNA sequencing allowed taxonomic classification.

 

 

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APPLICATION NOTE

High-throughput Cultivation Workflow for Isolation of Anaerobic Gut Bacteria

The B.SIGHT enables a high-throughput workflow for isolating anaerobic gut bacteria by dispensing image-confirmed single cells into 96- or 384-well plates. Its compact design fits into anaerobic workstations and supports both liquid and solid media. 

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APPLICATION NOTE

Accelerating bacteria transformation and cloning workflows using microbial single-cell isolation

Single-strain isolation was carried out using a two-step workflow with the B.SIGHT.  This workflow reduces time and cost compared to traditional colony picking, making B.SIGHT a powerful tool for strain isolation.

 

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Related Applications

MICROBIOME RESEARCH

Unlocks access to previously unculturable microbes, enabling deeper insights into complex microbial ecosystems.

SYNTHETIC BIOLOGY

Speeds up engineered strain development by enabling reliable isolation of high-performing microbial clones. 

SINGLE-CELL OMICS

Improves downstream data quality through precise sorting of verified single microbial cells for multi-omics analysis.

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Tipless, low-volume non-contact dispensing with the I.DOT for fast, precise liquid handling with minimal waste across life science applications.

C.WASH PLUS

Centrifugal plate washing system, compatible for 96-, 384-, and 1536-well plates.

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Frequently Asked Questions

Is there a single-cell dispenser for bacteria and anaerobes?

Yes — B.SIGHT is CYTENA's single-cell dispenser for microbiology and the first with full anaerobic compatibility. It moves in and out of a glove box or anaerobic chamber, isolating microbial cells across 0.5-20 µm, label-free or GFP-tagged, under the conditions they need.

How does single-cell isolation help culture "unculturable" microbes?

By giving each cell its own well — a competition-free microenvironment with no fast-growing neighbours or antagonistic metabolites — B.SIGHT lets rare and fastidious organisms establish. Isolation is deterministic, reaching taxa below 0.1% relative abundance that bulk culture in plates or liquid culture never surfaces.

Can B.SIGHT be used for microbial strain development, probiotics or LBPs?

Yes. B.SIGHT isolates thousands of clonal starting points in parallel, so you can screen producers and variants, develop novel growth media, and raise the odds of finding the low-frequency, high-value strains behind fermentation, probiotics and live biotherapeutic products (LBPs).

What sample types can B.SIGHT process?

Complex microbiome samples including faecal matter, soil, water, fermented foods and bioengineered microbial cultures have all been processed with B.SIGHT, with exceptional recovery of the microbial diversity, and image-based verification of single-cell isolation for every well.