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Biology subjects

Hart, D. R.

Publications and source records attributed to Hart, D. R..

2 recordsLinked to original sources

Spatially variable growth responses to warming in Atlantic Sea Scallops (Placopecten magellanicus)

Atlantic sea scallop is an important commercial species in the U.S., and its growth rate is strongly modulated by temperature. In this study, we quantified the interannual variations in scallop growth rate and thermal stress intensity in the Mid-Atlantic Bight (MAB) from 2000 to 2018. The results showed that the scallop growth rate variations were overall synchronized between the shallow (< 60 m) and deep ([&ge;] 60 m) MAB prior to 2015. The response of growth rate to warming in 2015 and 2016 showed marked spatial heterogeneity: scallops in the shallow subregions grew more slowly in the warm years, whereas higher temperature contributed to elevated growth rates in the deep subregions. We developed a dynamic energy budget model to explain the distinct growth rate response to warming at different depths. The model results showed that, in 2016, bottom temperatures in the shallow subregions exceeded the optimal range, limiting the energy available for growth. In contrast, warming created more favorable thermal conditions in the deep habitats. This work reveals the spatiotemporal patterns of scallop growth rates in the MAB and contributes a quantitative understanding of thermal stress and the development of science-based management strategies under future warming.

ecology↗

Weak tension accelerates hybridization and dehybridization of short oligonucleotides

The hybridization and dehybridization of DNA subject to tension is relevant to fundamental genetic processes and to the design of DNA-based mechanobiology assays. While strong tension accelerates DNA melting and decelerates DNA annealing, the effects of tension weaker than 5 pN are less clear. In this study, we developed a DNA bow assay, which uses the bending rigidity of double-stranded DNA (dsDNA) to exert weak tension on a single-stranded DNA (ssDNA) target in the range of 2pN to 6pN. Combining this assay with single-molecule FRET, we measured the hybridization and dehybridization kinetics between a 15 nt ssDNA under tension and a 8-9 nt oligo, and found that both the hybridization and dehybridization rates monotonically increase with tension for various nucleotide sequences tested. These findings suggest that the nucleated duplex in its transition state is more extended than the pure dsDNA or ssDNA counterpart. Our simulations using the coarse-grained oxDNA2 model indicate that the increased extension of the transition state is due to exclusion interactions between unpaired ssDNA regions in close proximity to one another. This study highlights an example where the ideal worm-like chain models fail to explain the kinetic behavior of DNA in the low force regime.

biophysics↗