arXiv subjects

Christopher D. P. Duffy

Publications and source records attributed to Christopher D. P. Duffy.

4 recordsLinked to original sources

arXiv2026

An Agnostic Machine Learning Model of Photosynthetic Habitability

The search for exoplanet biosignatures is guided by whether planetary environments can sustain photosynthesis. As such, the Photosynthetic Habitable Zone (PHZ) was recently proposed, as the overlap between the canonical habitable zone and the orbital range where stellar irradiance is sufficient to drive photosynthesis. Existing PHZ estimates rely on empirical light-response curves from Earth phytoplankton, and thus include implicit Earth-centric biases. We introduce an agnostic PHZ derived from a generalized model of photosynthesis grounded in thermodynamics and redox chemistry, without reference to model organisms. The model is built on a generic photochemical reaction in which photon capture couples oxidation of a donor molecule to the reduction of CO2. The optical properties and CO2 reduction rate are optimized against irradiance spectra for exoplanets orbiting main-sequence stars, using a genetic algorithm that mimics evolution by natural selection. Our simulations predict that photosynthetic organisms compensate for reduced flux by evolving larger light-harvesting structures. As a result, photosynthetic viability declines only linearly with orbital distance, despite stellar flux falling off quadratically. As such, the agnostic PHZ expands well beyond previous Earth-based estimates. Earth-like (visible light) oxygenic photosynthesis is flux-limited at the outer habitable zone for cool M-dwarf stars; however, both anoxygenic photosynthesis and a hypothetical, NIR-driven oxygenic photosynthesis are viable across the entire habitable zone for M, K, and G stars. This implies that M-dwarf exoplanets could sustain robust oxygenic photosynthesis, though it would be different to that found on Earth, presenting reflectance biosignatures in the NIR band rather than the visible.

astro-ph.EP↗

arXiv2023

Thermodynamic limits on oxygenic photosynthesis around M-dwarf stars: Generalized models and strategies for optimization

We explore the feasibility and potential characteristics of photosynthetic light-harvesting on exo-planets orbiting in the habitable zone of low mass stars ($< 1$ M$_{\odot}$). As stellar temperature, $T_{s}$, decreases, the irradiance maximum red-shifts out of the $400 \textrm{nm} \leq λ< 750$ nm range of wavelengths that can be utilized by \emph{oxygenic} photosynthesis on Earth. However, limited irradiance in this region does not preclude oxygenic photosynthesis and Earth's plants, algae and cyanobacteria all possess very efficient \emph{light-harvesting antennae} that facilitate photosynthesis in very low light. Here we construct general models of photosynthetic light-harvesting structures to determine how an oxygenic photosystem would perform in different irradiant spectral fluxes. We illustrate that the process of light-harvesting, capturing energy over a large antenna and concentrating it into a small \emph{reaction centre}, must overcome a fundamental \emph{entropic barrier}. We show that a plant-like antenna cannot be adapted to the light from stars of $T_{s}<3400$ K, as increasing antenna size offers diminishing returns on light-harvesting. This can be overcome if one introduces a slight \emph{enthalpic gradient}, to the antenna. Interestingly, this strategy appears to have been adopted by Earth's oxygenic cyanobacteria, and we conclude that \emph{bacterial} oxygenic photosynthesis is feasible around even the lowest mass M-dwarf stars.

astro-ph.EP↗

arXiv2023

Unravelling the fluorescence kinetics of light-harvesting proteins with simulated measurements

The plant light-harvesting pigment-protein complex LHCII is the major antenna sub-unit of PSII and is generally (though not universally) accepted to play a role in photoprotective energy dissipation under high light conditions, a process known Non-Photochemical Quenching (NPQ). The underlying mechanisms of energy trapping and dissipation within LHCII are still debated. Various proposed models differ considerably in their molecular and kinetic detail, but are often based on different interpretations of very similar transient absorption measurements of isolated complexes. Here we present a simulated measurement of the fluorescence decay kinetics of quenched LHCII aggregates to determine whether this relatively simple measurement can discriminate between different potential NPQ mechanisms. We simulate not just the underlying physics (excitation, energy migration, quenching and singlet-singlet annihilation) but also the signal detection and typical experimental data analysis. Comparing this to a selection of published fluorescence decay kinetics we find that: (1) Different proposed quenching mechanisms produce noticeably different fluorescence kinetics even at low (annihilation free) excitation density, though the degree of difference is dependent on pulse width. (2) Measured decay kinetics are consistent with most LHCII trimers becoming relatively slow excitation quenchers. A small sub-population of very fast quenchers produces kinetics which do not resemble any observed measurement. (3) It is necessary to consider at least two distinct quenching mechanisms in order to accurately reproduce experimental kinetics, supporting the idea that NPQ is not a simple binary switch switch.

q-bio.MN↗

arXiv2023

Photosynthesis Under a Red Sun: Predicting the absorption characteristics of an extraterrestrial light-harvesting antenna

Here we discuss the feasibility of photosynthesis on Earth-like rocky planets in close orbit around ultra-cool red dwarf stars. Stars of this type have very limited emission in the \textit{photosynthetically active} region of the spectrum ($400 - 700$ nm), suggesting that they may not be able to support oxygenic photosynthesis. However, photoautotrophs on Earth frequently exploit very dim environments with the aid of highly structured and extremely efficient antenna systems. Moreover, the anoxygenic photosynthetic bacteria, which do not need to oxidize water to source electrons, can exploit far red and near infrared light. Here we apply a simple model of a photosynthetic antenna to a range of model stellar spectra, ranging from ultra-cool (2300 K) to Sun-like (5800 K). We assume that a photosynthetic organism will evolve an antenna that maximizes the rate of energy input while also minimizing fluctuations. The latter is the 'noise cancelling' principle recently reported by Arp et al. 2020. Applied to the Solar spectrum this predicts optimal antenna configurations in agreement with the chlorophyll Soret absorption bands. Applied to cooler stars, the optimal antenna peaks become redder with decreasing stellar temperature, crossing to the typical wavelength ranges associated with anoxygenic photoautotrophs at $\sim 3300$ K. Lastly, we compare the relative input power delivered by antennae of equivalent size around different stars and find that the predicted variation is within the same order of magnitude. We conclude that low-mass stars do not automatically present light-limiting conditions for photosynthesis but they may select for anoxygenic organisms.

astro-ph.EP↗