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Biology subjects

Shukla, S.

Publications and source records attributed to Shukla, S..

3 recordsLinked to original sources

Asymmetric Tug-of-War leads to Cooperative Transport of a Cargo by Multiple Kinesins

How cargoes move within a crowded cell--over long distances and at speeds that are nearly the same as when moving on an unimpeded pathway--has long been mysterious. Through an in vitro gliding assay, which involves measuring nanometer displacement and piconewtons of force, we have evidence that when kinesins, a cytoplasmic molecular motor, operate in small groups, from 2-10, they can communicate among themselves through an asymmetric tug-of-war by inducing tension (up to 4 pN) on the cargo. Surprisingly, the primary role of approximately one-third of kinesins is to develop tension, which instantaneously slows forward motion but helps increase cargo run length. These hindering kinesins fall off rapidly when experiencing a forward tug. Occasionally, they may be ripped off from their anchors by other driving kinesins working in tandem. Furthermore, with roadblocks on the microtubule, multiple kinesins cooperate to overcome impediments. Hence, kinesin may employ an asymmetric tug-of-war and a cooperative motion to navigate through cellular environment.

biophysics

A Novel Uranium Bioremediation Approach using Radioresistance Deinocoocus radiodurans Biofilm

Deinococcus radiodurans, is the most radiation tolerant organism ever known, it has gained importance in recent years as a potential candidate for bioremediation of heavy metals, especially radioactive ones. This study investigates the efficiency of a recombinant D. radiodurans (DR1-bf+) strain with an ability to form biofilm for uranium remediation. The modified Arsenazo III dye method was used to estimate the uranium concentration. Uranyl nitrate aqueous solution is generated during the operation of nuclear fuel reprocessing. The D. radiodurans biofilm (DR1-bf+) grown in the presence of 20 mM Ca2+ showed remarkable ability of uranyl ion removal. DR1-bf+ (+Ca2+) biofilm removed [~]75 {+/-} 2% of 1000 mg/L uranium within 30 minutes post treatment from uranyl nitrate aqueous solution. U removal rate was also found to be directly proportional to biofilm age. This study discusses the ability of D. radiodurans biofilm in uranium removal.\n\n\n\nO_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=88 SRC=\"FIGDIR/small/503896_ufig1.gif\" ALT=\"Figure 1\">\nView larger version (34K):\norg.highwire.dtl.DTLVardef@1905462org.highwire.dtl.DTLVardef@93f7f6org.highwire.dtl.DTLVardef@7c6d1dorg.highwire.dtl.DTLVardef@dfb11f_HPS_FORMAT_FIGEXP M_FIG Graphical abstract C_FIG

microbiology

The landscape of antigen-specific T cells in human cancers

Antigen-specific T cells can be orchestrated to kill cancer cells in immunotherapies but the utilities of the TCR information have not been fully explored. Here, we leveraged previous efforts on tumor TCR repertoire, and developed a novel algorithm to characterize antigen-specific TCR clusters. Joint analysis with gene expression revealed novel regulators for T cell activation. Investigation of single-cell sequencing data revealed a novel subset of tissue-resident memory T cell population with elevated metabolic status. Integrative analysis of TCR clusters with HLA alleles and cancer genomics data identified candidate antigens derived from missense mutations, frameshift indels, and tumor-associated gene overexpression. Predicted antigen HSFX1 was further validated using vaccinated humanized HLA-A*02:01 mice. Finally, high abundant cancer-associated TCRs were observed in the blood repertoire of early breast cancer patients, suggesting new avenues for noninvasive early detection. Thus, our analysis identified cancer-associated T cells with broad utilities in immune monitoring and cancer immunotherapies.

bioinformatics