Upper ocean processes play a key role in air-sea coupling, with variability on both short and long time scales. The diurnal cycle associated with diurnal solar insolation and nighttime cooling, may act, along with stochastic wind variability, on upper ocean temperatures and stratification resulting in a diurnal warm layer and a nonlinear rectified effect on longer time scales. This study describes diurnal changes in upper ocean temperature for a location in the equatorial Indian Ocean, using observations from the Dynamics of the Madden-Julian Oscillation field campaign, a high vertical resolution 1-D process model, and a diurnal cycling scheme. Solar forcing is the main driver of diurnal variability in upper ocean temperature and stratification. Yet except during nighttime convection, winds with variability on the order of hours (here referred to as “wind gusts”) regulate how fast surface water is mixed to greater depths when daily mean winds are weak. Wind gusts are much stronger than diurnal winds. Even using stochastic wind gusts but no diurnal winds as input in a 1-D process model yields an estimate of diurnal temperature that compares well with observations. A new version of the Large and Caron (2015) scheme (LC2015) provides an estimate of upper ocean diurnal temperature that is consistent with observations. LC2015 has the advantage of being suitable for implementation in a climate model, with the goal to improve SST estimates, hence the simulated heat flux at the air-sea interface. Yet LC2015 is not very sensitive to the inclusion or omission of the high-frequency component of the wind.

The Muller F element (4.2 Mb, ~80 protein-coding genes) is an unusual autosome of Drosophila melanogaster; it is mostly heterochromatic with a low recombination rate. To investigate how these properties impact the evolution of repeats and genes, we manually improved the sequence and annotated the genes on the D. erecta, D. mojavensis, and D. grimshawi F elements and euchromatic domains from the Muller D element. We find that F elements have greater transposon density (25-50%) than euchromatic reference regions (3-11%). Among the F elements, D. grimshawi has the lowest transposon density (particularly DINE-1: 2% vs. 11-27%). F element genes have larger coding spans, more coding exons, larger introns, and lower codon bias. Comparison of the Effective Number of Codons with the Codon Adaptation Index shows that, in contrast to the other species, codon bias in D. grimshawi F element genes can be attributed primarily to selection instead of mutational biases, suggesting that density and types of transposons affect the degree of local heterochromatin formation. F element genes have lower estimated DNA melting temperatures than D element genes, potentially facilitating transcription through heterochromatin. Most F element genes (~90%) have remained on that element, but the F element has smaller syntenic blocks than genome averages (3.4-3.6 vs. 8.4-8.8 genes per block), indicating greater rates of inversion despite lower rates of recombination. Overall, the F element has maintained characteristics that are distinct from other autosomes in the Drosophila lineage, illuminating the constraints imposed by a heterochromatic milieu.