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Biology subjects

Honda, A.

Publications and source records attributed to Honda, A..

3 recordsLinked to original sources

Compounds toxic to stationary-phase yeast reveal a role for lipid metabolism in quiescent cell survival

The mechanisms that enable quiescent cells to survive nutrient-limited conditions remain imcompletely understood. To investigate these mechanisms, we performed a large-scale chemical screen to identify compounds that reduce viability of stationary-phase fission yeast cells. We identified two structurally related compounds that impair quiescent cell survival. In stationary phase, these compounds inhibited cell cycle re-entry, altered lipid droplets (LDs), and affected nuclear and chromosomal size, all of which are associated with lipid metabolism. In proliferating cells, they induced cell cycle arrest accompanied by nucleolar accumulation of cyclin-dependent kinase (CDK), a hallmark of stationary-phase cells, and inhibited mitochondrial oxygen consumption. The lipid synthesis inhibitor cerulenin similarly inhibited cell cycle re-entry and induced cell cycle arrest with nucleolar CDK accumulation; however, it did not reduce viability in stationary-phase cells or reproduce the other cellular effects. These results indicate that the compounds may affect lipid metabolism potentially by impairing lipid mobilization. Furthermore, the compounds were also toxic to stationary-phase budding yeast, suggesting conservation of survival mechanisms in quiescent cells. Together, our findings suggest that lipid metabolism, possibly lipid mobilization, plays a critical role in quiescent cell survival.

Cell Biology↗

Ataxia-Telangiectasia Mutated Inhibition Enhances Adeno-Associated Virus-Mediated Knock-in Efficiency in Pig Zygotes

A persistent global shortage of transplantable organs has renewed interest in pigs as donors for xenotransplantation and hosts for interspecies organogenesis considering their physiology closely resembles that of humans. Such applications require pigs harboring genetic modifications, including knockouts, human transgenes, and conditional alleles. Although such complex allele combinations can be assembled by sequential editing of fetal fibroblasts, followed by somatic cell nuclear transfer (SCNT), SCNT is often associated with developmental abnormalities. Direct genome editing of pig zygotes offers an alternative route; however, achieving long-fragment knock-in, particularly at multiple loci, remains challenging. Here, adeno-associated virus (AAV) donor vectors for long-fragment knock-in in pig zygotes were evaluated, and tested whether transient inhibition of ataxia-telangiectasia mutated (ATM), which becomes overactivated during AAV transduction, could enhance knock-in efficiency. AAV6 donors supported efficient ACTB-mEGFP knock-in (33%), whereas short-term treatment with the ATM inhibitor AZ32 increased the efficiency to 66%. In addition, AZ32 enhanced simultaneous double knock-in at ACTB and UBB, generating a higher proportion of double-positive blastocysts (52% vs. 19% in controls), without affecting blastocyst formation rates or total cell numbers. Embryo transfer yielded ACTB-mEGFP and UBB-mScarlet-I3 double knock-in fetuses (33%), including an F0 fetus composed almost entirely of double knock-in cells. These results demonstrate that combining AAV donors with transient ATM inhibition is an efficient strategy for long-fragment knock-in at multiple loci in pigs.

bioengineering↗

Systematic Chemogenetic Library Assembly

The assembly of chemogenetic libraries composed of chemical probes provides tremendous value to biomedical research, but requires substantial effort to ensure diversity as well as quality of the contents. We are assembling a chemogenetic library by data mining and crowdsourcing institutional expertise. We are sharing our methodology, lessons learned, and disclosing our current collection of 4186 compounds with their primary annotated gene targets.

bioinformatics↗