should isoprene emissions move to traits?
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@NidhiVinod and @tyeentaylor , Sorry to re-open an old debate, but now that we've reorganized the traits section by category rather than intraspecific- interspecific, I think it might make more sense to put isoprene emissions back in traits. The orphan blob on isoprenes seems strange.
What do you think?
@tyeentaylor, what do you think? I don't mind moving it to traits
Okay, I just did the macro move in the document. Still to be done:
- merge text previously in traits with that previously in metabolism (I'll work on this now)
- move isoprenes to table 1 (@NidhiVinod )
- move isoprenes on Fig. 1 (@NidhiVinod )
I'll work on Fig 1 and Table
Okay isoprene in the trait table now
@NidhiVinod , wondering if the isoprenes are quite right in the traits table? Specifically, are we trying to represent (1) rate of emission within emitting species (my interpretation of what's currently there), (2) fraction of species/ individuals with emission capability, or (3) a mix of the two? I think it's (3), but not sure. I've left these highlighted until we're sure.
I guess the same question applies to monoterpenoids.
@teixeirak, yes, it's 3) please correct me if I'm wrong @tyeentaylor .
Okay, so let's create another category for those (e.g., "isoprene emissions capability"). The units we have now imply that what's listed is a rate. We need to make sure these all have the right label/units.
@Krista, I had isoprene emission ability actually above VOC section which is emission capability. Yeah, you're right, i should remove the units there and maybe change the name to "capability", and move it below VOC?
@NidhiVinod , I did this-- table is fine now.
BUT... Do refs 49 (@tyeentaylor 's) and 63 (Simpraga et al. 2013) really examine height AND light gradients?
@Krista, thank you, I'm still working on optical properties. Yes, 63 does. I'm double checking if 49 (Ty's does) where they do mention VOC responses to dynamic light conditions as in mid-canopy, but I don't see direct response to light itself (@tyeentaylor, please correct me if i'm wrong)?
@NidhiVinod , if we're looking at a height gradient, we should list it just as height. The implication/ assumption is that light also varies, whether or not it is measured. My definition of a light gradient would be leaves collected near ground level from sun and shade conditions.
@teixeirak, oh okay, I see, then in that case I might have to remove light variables for the two: isoprene and MT. And maybe I'll also double check if the light gradient definition matches the citations in the tables. That's what i had in mind while working on it but maybe i have a few that might not belong in the light gradient section.
@NidhiVinod and @tyeentaylor , I've made the changes to Table 1 that you mentioned:
-removed light rows for isoprenes and monoterpenes
- changed wording as suggested by Ty
@tyeentaylor , we're not keeping the google doc up to date. I will email you the latest. Note submission deadline today (so it's only worth commenting if you can do it right away).
And I'll close this issue-- everything here is resolved, unless Ty has wording changes.
I'm getting a "temporary" error when I try to access this (but it seems to be persisting). @NidhiVinod , can you see it?
@teixeirak and @tyeentaylor, no, I cannot access it either, not sure why
@tyeentaylor: here is the .rmd, if you are able to knit it, it will the most updated version:
https://github.com/EcoClimLab/vertical-thermal-review/blob/master/vertical-thermal-review.Rmd
Also here is the document that is updated: https://github.com/EcoClimLab/vertical-thermal-review/blob/master/vertical-thermal-review.docx
Capacity for heat-sensitive, light-dependent (photosynthetically linked) emissions of volatile organic compounds (VOCs), including isoprene and monoterpenes, enhances photosynthetic thermal tolerance by regulating antioxidant defenses and other metabolic processes [@sharkeyIsopreneEmissionPlants2008; @taylorCapacityEmitIsoprene2019; @monsonLeafIsopreneEmission2021; @vickersUnifiedMechanismAction2009; @copoloviciCapacityThermalProtection2005; @riedlmeierMonoterpenesSupportSystemic2017].
In contrast to VOCs stored in oils that are released passively by heat and wounding, such as the monoterpenes responsible for pine scent, light-dependent emissions are linked to photosynthetic substrate supply and are dynamically tuned to environmental and metabolic conditions as a component of metabolic regulatory processes [@monsonLeafIsopreneEmission2021; @laothawornkitkulBiogenicVolatileOrganic2009; @lantzIsopreneNewInsights2019; @riedlmeierMonoterpenesSupportSystemic2017].
Due to its much higher emission rates and relative ease of detectability, isoprene has received far more study in the field, though both isoprene and monoterpenes are expressed by a wide diversity of angiosperms and gymnosperms across all biomes of the globe [see @taylorNewFieldInstrument2021 and references therein].
Less than half of tree species express significant light-dependent isoprene emissions [@kesselmeierBiogenicVolatileOrganic; @taylorIsopreneEmissionStructures2018], such that variation in emissions across the vertical profile is influenced both by vertical variation in species compositions and plasticity in emission rate capacities [@taylorNewFieldInstrument2021].
Within species, isoprene emission rates tend to increase toward brighter and hotter microenvironments [@niinemetsPhotosynthesisResourceDistribution2007], and across landscapes, emitting species increase in relative abundance toward hotter climates, exceeding half of trees in warm tropical forests [@taylorIsopreneEmissionStructures2018].
However, a recent study found a contrasting interspecific vertical structuring of emission capacities, with more emitting species and higher species-maximum emission rates in the mid-canopy region of an Amazonian forest [Table r table_leaf_traits, @taylorNewFieldInstrument2021].
Similarly, within tree crowns of European beech, monoterpene emissions were found to be highest in semi-shaded leaves beneath the canopy surface [Table r table_leaf_traits, @simpragaVerticalCanopyGradient2013].
This pattern may indicate the importance of temporal variability in thermal conditions as distinct from the long-term average.
Temperature sensitive VOC emissions have been hypothesized to enable real-time acclimation to rapidly changing leaf thermal environments typical of the mid-canopy region [see section 1, @sharkeyIsopreneEmissionPlants2008].
Future work seeking to understand how temporal dynamics of leaf heating [see @leighInfluenceLeafSize2017] with height and influence leaf function will be important for resolving the role of VOCs in forest thermal sensitivity across the vertical gradient.
Given current understanding, we may hypothesize that light-dependent VOC emissions are important for mid-canopy thermal responses, while other traits play the same role in sun-exposed canopy leaves.
Hmmm... I don't see any track changes. I copied and pasted what I saw, and it is identical to the original text (with the exception of removing necessary ` symbols).
FYI, we got an extension on the re submission until next Tuesday, so we have time to get these in.
@tyeentaylor, I can see track changes now. Thank you