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Jonathon Howard

Publications and source records attributed to Jonathon Howard.

2 recordsLinked to original sources

The mitotic spindle in the one-cell C. elegans embryo is positioned with high precision and stability

Precise positioning of the mitotic spindle is important for specifying the plane of cell division, which in turn determines how the cytoplasmic contents of the mother cell are partitioned into the daughter cells, and how the daughters are positioned within the tissue. During metaphase in the early C. elegans embryo, the spindle is aligned and centered on the anterior-posterior axis by a microtubule-dependent machinery that exerts restoring forces when the spindle is displaced from the center. To investigate the accuracy and stability of centering, we tracked the position and orientation of the mitotic spindle during the first cell division with high temporal and spatial resolution. We found that the precision is remarkably high: the cell-to-cell variation in the transverse position of the center of the spindle during metaphase, as measured by the standard deviation, was only 1.5% of the length of the short axis of the cell. Spindle position is also very stable: the standard deviation of the fluctuations in transverse spindle position during metaphase was only 0.5% of the short axis of the cell. Assuming that stability is limited by fluctuations in the number of independent motor elements such as microtubules or dyneins underlying the centering machinery, we infer that the number is on the order of one thousand, consistent with the several thousand of astral microtubules in these cells. Astral microtubules grow out from the two spindle poles, make contact with the cell cortex, and then shrink back shortly thereafter. The high stability of centering can be accounted for quantitatively if, while making contact with the cortex, the astral microtubules buckle as they exert compressive, pushing forces. We thus propose that the large number of microtubules in the asters provides a highly precise mechanism for positioning the spindle during metaphase while assembly is completed prior to the onset of anaphase.

Biophysics

The contribution of alternative splicing probability to the coding expansion of the genome

Alternative splicing results in the inclusion or exclusion of exons in an RNA, thereby allowing a single gene to code for multiple RNA isoforms. Genes are often composed of many exons, allowing combinatorial choice to significantly expand the coding potential of the genome. How much coding potential is gained by alternative splicing and what is the main contributor: alternative-splicing-depth or exon-count? Here we develop a splice-site-centric quantification method, allowing us to characterize transcriptome-wide alternative splicing with a simple probabilistic model, enabling species-wide comparison. We use information theory to quantify the coding potential gain and show that an increase in alternative splicing probability contributes more to transcriptome expansion than exon-count. Our results suggest that dominant isoforms are co-expressed alongside many minor isoforms. We propose that this solves two problems simultaneously, that is, expression of functional isoforms and expansion of the transcriptome landscape potentially without a direct function, but available for evolution.

Systems Biology