Backbone 1H, 13C, and 15N NMR assignments of the tail domain of vinculin

Vinculin is an essential protein involved in linking the actin cytoskeleton to sites of cell-cell and cell-matrix adhesion. Here we report the majority of the backbone ¹H_N, ¹⁵N, ¹³C_α, ¹³CO, and side chain ¹³C_β NMR resonance assignments of the actin binding tail domain of vinculin (Vt).     

Alternative SAIL-Trp for robust aromatic signal assignment and determination of the χ<Subscript>2</Subscript> conformation by intra-residue NOEs

Tryptophan (Trp) residues are frequently found in the hydrophobic cores of proteins, and therefore, their side-chain conformations, especially the precise locations of the bulky indole rings, are critical for determining structures by NMR. However, when analyzing [U–¹³C,¹⁵N]-proteins, the observation and assignment of the ring signals are often hampered by excessive overlaps and tight spin couplings. These difficulties have been greatly alleviated by using stereo-array isotope labeled (SAIL) proteins, which are composed of isotope-labeled amino acids optimized for unambiguous side-chain NMR assignment, exclusively through the ¹³C–¹³C and ¹³C–¹H spin coupling networks (Kainosho et al. in Nature 440:52–57, 2006). In this paper, we propose an alternative type of SAIL-Trp with the [ζ2,ζ3-²H₂; δ1,ε3,η2-¹³C₃; ε1-¹⁵N]-indole ring ([¹²C_γ, ¹²C_ε2] SAIL-Trp), which provides a more robust way to correlate the ¹H_β, ¹H_α, and ¹H_N to the ¹H_δ1 and ¹H_ε3 through the intra-residue NOEs. The assignment of the ¹H_δ1/¹³C_δ1 and ¹H_ε3/¹³C_ε3 signals can thus be transferred to the ¹H_ε1/¹⁵N_ε1 and ¹H_η2/¹³C_η2 signals, as with the previous type of SAIL-Trp, which has an extra ¹³C at the C_γ of the ring. By taking advantage of the stereospecific deuteration of one of the prochiral β-methylene protons, which was ¹H_β2 in this experiment, one can determine the side-chain conformation of the Trp residue including the χ₂ angle, which is especially important for Trp residues, as they can adopt three preferred conformations. We demonstrated the usefulness of [¹²C_γ,¹²C_ε2] SAIL-Trp for the 12 kDa DNA binding domain of mouse c-Myb protein (Myb-R2R3), which contains six Trp residues.     

Nocturnal and seasonal patterns of carbon isotope composition of leaf dark-respired carbon dioxide differ among dominant species in a semiarid savanna

The C isotope composition of leaf dark-respired CO₂ (δ¹³C_l) integrates short-term metabolic responses to environmental change and is potentially recorded in the isotopic signature of ecosystem-level respiration. Species differences in photosynthetic pathway, resource acquisition and allocation patterns, and associated isotopic fractionations at metabolic branch points can influence δ¹³C_l, and differences are likely to be modified by seasonal variation in drought intensity. We measured δ¹³C_l in two deep-rooted C₃ trees (Prosopis velutina and Celtis reticulata), and two relatively shallow-rooted perennial herbs (a C₃ dicot Viguiera dentata and a C₄ grass Sporobolus wrightii) in a floodplain savanna ecosystem in southeastern Arizona, USA during the dry pre-monsoon and wet monsoon seasons. δ¹³C_l decreased during the nighttime and reached minimum values at pre-dawn in all species. The magnitude of nocturnal shift in δ¹³C_l differed among species and between pre-monsoon and monsoon seasons. During the pre-monsoon season, the magnitude of the nocturnal shift in δ¹³C_l in the deep-rooted C₃ trees P. velutina (2.8 ± 0.4‰) and C. reticulata (2.9 ± 0.2‰) was greater than in the C₃ herb V. dentata (1.8 ± 0.4‰) and C₄ grass S. wrightii (2.2 ± 0.4‰). The nocturnal shift in δ¹³C_l in V. dentata and S. wrightii increased to 3.2 ± 0.1‰ and 4.6 ± 0.6‰, respectively, during the monsoon season, but in C₃ trees did not change significantly from pre-monsoon values. Cumulative daytime net CO₂ uptake was positively correlated with the magnitude of the nocturnal decline in δ¹³C_l across all species, suggesting that nocturnal δ¹³C_l may be controlled by ¹³C/¹²C fractionations associated with C substrate availability and C metabolite partitioning. Nocturnal patterns of δ¹³C_l in dominant plant species in the semiarid savanna apparently have predictable responses to seasonal changes in water availability, which is important for interpreting and modeling the C isotope signature of ecosystem-respired CO₂.     

Patterns and controls of seasonal variability of carbon stable isotopes of particulate organic matter in lakes

Carbon stable isotopes (δ¹³C) of particulate organic matter (POM) have been used as indicators for energy flow, primary productivity and carbon dioxide concentration in individual lakes. Here, we provide a synthesis of literature data from 32 freshwater lakes around the world to assess the variability of δ¹³C_POM along latitudinal, morphometric and biogeochemical gradients. Seasonal mean δ¹³C_POM, a temporally integrated measure of the δ¹³C_POM, displayed weak relationships with all trophic state indices [total phosphorus (TP), total nitrogen (TN), and chlorophyll a (Chl a)], but decreased significantly with the increase in latitude, presumably in response to the corresponding decrease in water temperature and increase in CO₂ concentration. The seasonal minimum δ¹³C_POM also correlated negatively with latitude while seasonal maximum δ¹³C_POM correlated positively with all trophic state indices, pH, and δ¹³C of dissolved inorganic carbon (DIC). Seasonal amplitude of δ¹³C_POM (the difference between seasonal maximum and minimum values) correlated significantly with pH, TP and Chl a concentrations and displayed small variations in oligotrophic, mesotrophic and low latitude eutrophic lakes, which is attributed to low primary productivity and abundant non-living POM in the low trophic state lakes and relatively stable environmental conditions in the subtropics. Seasonal amplitude of δ¹³C_POM was the greatest in high latitude eutrophic lakes. Greater seasonal changes in solar energy and light regime may be responsible for the large seasonal variability in high latitude productive lakes. This synthesis provides new insights on the factors controlling variations in stable carbon isotopes of POM among lakes on the global scale.     

Does Bienertia cycloptera with the single-cell system of C(4) photosynthesis exhibit a seasonal pattern of delta (13)C values in nature similar to co-existing C (4) Chenopodiaceae having the dual-cell (Kranz) system?

Family Chenopodiaceae is an intriguing lineage, having the largest number of C₄ species among dicots, including a number of anatomical variants of Kranz anatomy and three single-cell C₄ functioning species. In some previous studies, during the culture of Bienertia cycloptera Bunge ex Boiss., carbon isotope values (δ¹³C values) of leaves deviated from C₄ to C₃−C₄ intermediate type, raising questions as to its mode of photosynthesis during growth in natural environments. This species usually co-occurs with several Kranz type C₄ annuals. The development of B. cycloptera morphologically and δ¹³C values derived from plant samples (cotyledons, leaves, bracts, shoots) were analyzed over a complete growing season in a salt flat in north central Iran, along with eight Kranz type C₄ species and one C₃ species. For a number of species, plants were greenhouse-grown from seeds collected from the site, in order to examine leaf anatomy and C₄ biochemical subtype. Among the nine C₄ species, the cotyledons of B. cycloptera, and of the Suaeda spp. have the same respective forms of C₄ anatomy occurring in leaves, while cotyledons of members of tribe Caroxyloneae lack Kranz anatomy, which is reflected in the δ¹³C values found in plants grown in the natural habitat. The nine C₄ species had average seasonal δ¹³C values of −13.9‰ (with a range between species from −11.3 to −15.9‰). The measurements of δ¹³C values over a complete growing season show that B. cycloptera performs C₄ photosynthesis during its life cycle in nature, similar to Kranz type species, with a seasonal average δ¹³C value of −15.2‰. Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users.     

Backbone assignment and dynamics of human α-synuclein in viscous 2 M glucose solution

We present ¹H^N, ¹⁵N, ¹³C^α, ¹³C^β and ¹³C′ assignments and ¹⁵N transverse relaxation rates (R₂) of a Parkinson’s disease-related intrinsically disordered protein, α-synuclein, in the presence of 2 M (360 g/l) glucose solution.     

Photosynthetic pathway of dominant plant species in the Qaidam Basin: evidence from foliar stable carbon isotope measurement

Foliar δ¹³C values of Calligogum kozlovi and Haloxylon ammodendron ranged from −13.13 to −15.11 ‰, while those of the rest 11 species were in the range of −22.22 to −27.73 ‰. This indicates that two of 13 dominant plant species in the Qaidam Basin possess a C₄ photosynthetic pathway. Significant differences were observed for the average foliar δ¹³C values between C₃ or C₄ plant communities, between grass and shrub communities, even between the same species derived from different sites. Precipitation accounted for the major part of the differences.     

GFT projection NMR based resonance assignment of membrane proteins: application to subunit c of <Emphasis Type="Italic">E. coli</Emphasis> F<Subscript>1</Subscript>F<Subscript>0</Subscript> ATP synthase in LPPG micelles

G-matrix FT projection NMR spectroscopy was employed for resonance assignment of the 79-residue subunit c of the Escherichia coli F₁F₀ ATP synthase embedded in micelles formed by lyso palmitoyl phosphatidyl glycerol (LPPG). Five GFT NMR experiments, that is, (3,2)D HNNCO, L-(4,3)D HNNC ^αβ C ^α, L-(4,3)D HNN(CO)C ^αβ C ^α, (4,2)D HACA(CO)NHN and (4,3)D HCCH, were acquired along with simultaneous 3D ¹⁵N, ¹³C^aliphatic, ¹³C^aromatic-resolved [¹H,¹H]-NOESY with a total measurement time of ∼43 h. Data analysis resulted in sequence specific assignments for all routinely measured backbone and ¹³C^β shifts, and for 97% of the side chain shifts. Moreover, the use of two G²FT NMR experiments, that is, (5,3)D HN{N,CO}{C ^αβ C ^α} and (5,3)D {C ^αβ C ^α}{CON}HN, was explored to break the very high chemical shift degeneracy typically encountered for membrane proteins. It is shown that the 4D and 5D spectral information obtained rapidly from GFT and G²FT NMR experiments enables one to efficiently obtain (nearly) complete resonance assignments of membrane proteins. Qi Zhang, Hanudatta S. Atreya, Douglas E. Kamen, Mark E. Girvin and Thomas Szyperski—New York Consortium on Membrane Protein Structure.     

Backbone assignments of the 34 kDa ketopantoate reductase from E. coli

Ketopantoate reductase is an essential enzyme for pantothenate (vitamin B₅) synthesis and a potential antibiotic target. Here we report the ¹⁵N and ¹HN, ¹³C′, ¹³C^α and ¹³C^β chemical shift assignments of the 34 kDa ketopantoate reductase in its apo state.     

Residue Specific Ribose and Nucleobase Dynamics of the cUUCGg RNA Tetraloop Motif by MNMR 13C Relaxation

The dynamics of the nucleobase and the ribose moieties in a 14-nt RNA cUUCGg hairpin-loop uniformly labeled with ¹³C and ¹⁵N were studied by ¹³C spin relaxation experiments. R₁, R_1ρ and the ¹³C-{¹H} steady-state NOE of C₆ and C_1′ in pyrimidine and C₈ and C_1′ in purine residues were obtained at 298 K. The relaxation data were analyzed by the model-free formalism to yield dynamic information on timescales of pico-, nano- and milli-seconds. An axially symmetric diffusion tensor with an overall rotational correlation time τ_c of 2.31±0.13 ns and an axial ratio of 1.35±0.02 were determined. Both findings are in agreement with hydrodynamic calculations. For the nucleobase carbons, the validity of different reported ¹³C chemical shift anisotropy values (Stueber, D. and Grant, D. M., 2002 J. Am. Chem. Soc. 124, 10539–10551; Fiala et al., 2000 J. Biomol. NMR 16, 291–302; Sitkoff, D. and Case, D. A., 1998 Prog. NMR Spectroscopy 32, 165–190) is discussed. The resulting dynamics are in agreement with the structural features of the cUUCGg motif in that all residues are mostly rigid (0.82 < S² < 0.96) in both the nucleobase and the ribose moiety except for the nucleobase of U7, which is protruding into solution (S² = 0.76). In general, ribose mobility follows nucleobase dynamics, but is less pronounced. Nucleobase dynamics resulting from the analysis of ¹³C relaxation rates were found to be in agreement with ¹⁵N relaxation data derived dynamic information (Akke et al., 1997 RNA 3, 702–709). Electronic supplementary material Electronic supplementary material is available for this article at and accessible for authorised users.     

The trophic history of Myall Lakes,New South Wales,Australia: interpretations using δ<Superscript>13</Superscript>C and δ<Superscript>15</Superscript>N of the sedimentary record

In an attempt to determine the trophic history of the Myall Lakes complex (New South Wales, Australia) δ¹³C_org, δ¹⁵N and C_org:N profiles were determined for bulk organic matter of two short sediment cores from Bombah Broadwater and Myall Lake. ²¹⁰Pb profiles and sediment types indicate significantly different trophic trajectories during the time periods examined. δ¹³C_org and C_org:N indicate Bombah Broadwater has been dominated by increasing inputs of terrestrial organic material over the last century, thought to be related to watershed disturbance including agricultural activity. Primary production appears to be dominated by phytoplankton. δ¹⁵N remained relatively stable at around 1‰ until the mid–1970s when there was a sharp increase to 4.7‰, interpreted as an influx of sewage-derived material. These observations offer an insight into the recent trophic changes at the site. Sedimentation rates are noticeably lower in Myall Lake and the most recent sediment is a flocculent organic rich deposit overlying mineral clay. δ¹³C_org and C_org:N values indicate a transition from plankton to macrophyte dominated primary production around 1800AD. δ¹⁵N values become increasingly negative from approximately 1900AD. This is interpreted as being due to increasing reliance by macrophytes on nitrogen recycled from decomposing sediments driven by natural infilling and eutrophication in this basin. The contrasting sedimentation rates, sediment types and geochemical profiles suggest the different basins of this water body are subject to substantially different internal and external influences which should be considered in management decisions.     

Bleached Porites compressa and Montipora capitata corals catabolize ��13C-enriched lipids

Corals rely on stored energy reserves (i.e., lipids, carbohydrates, and protein) to survive bleaching events. To better understand the physiological implications of coral bleaching on lipid catabolism and/or synthesis, we measured the δ¹³C of coral total lipids (δ¹³C_TL) in experimentally bleached (treatment) and non-bleached (control) Porites compressa and Montipora capitata corals immediately after bleaching and after 1.5 and 4 months of recovery on the reef. Overall δ¹³C_TL values in treatment corals were significantly lower than in control corals because of a 1.9 and 3.4‰ decrease in δ¹³C_TL immediately after bleaching in P. compressa and M. capitata, respectively. The decrease in δ¹³C_TL coincided with decreases in total lipid concentration, indicating that corals catabolized δ¹³C-enriched lipids. Since storage lipids are primarily depleted during bleaching, we hypothesize that they are isotopically enriched relative to other lipid classes. This work further helps clarify our understanding of changes to coral metabolism and biogeochemistry when bleached and helps elucidate how lipid classes may influence recovery from bleaching and ultimately coral survival.     

Wetting and drying cycles drive variations in the stable carbon isotope ratio of respired carbon dioxide in semi-arid grassland

In semi-arid regions, where plants using both C₃ and C₄ photosynthetic pathways are common, the stable C isotope ratio (δ¹³C) of ecosystem respiration (δ¹³C_R) is strongly variable seasonally and inter-annually. Improved understanding of physiological and environmental controls over these variations will improve C cycle models that rely on the isotopic composition of atmospheric CO₂. We hypothesized that timing of precipitation events and antecedent moisture interact with activity of C₃ and C₄ grasses to determine net ecosystem CO₂ exchange (NEE) and δ¹³C_R. Field measurements included CO₂ and δ¹³C fluxes from the whole ecosystem and from patches of different plant communities, biomass and δ¹³C of plants and soils over the 2000 and 2001 growing seasons. NEE shifted from C source to sink in response to rainfall events, but this shift occurred after a time lag of up to 2 weeks if a dry period preceded the rainfall. The seasonal average of δ¹³C_R was higher in 2000 (−16‰) than 2001 (20‰), probably due to drier conditions during the 2000 growing season (79.7 mm of precipitation from April up to and including July) than in 2001 (189 mm). During moist conditions, δ¹³C averaged −22‰ from C₃ patches, −16‰ from C₄ patches, and −19‰ from mixed C₃ and C₄ patches. However, during dry conditions the apparent spatial differences were not obvious, suggesting reduced autotrophic activity in C₄ grasses with shallow rooting depth, soon after the onset of dry conditions. Air and soil temperatures were negatively correlated with δ¹³C_R; vapor pressure deficit was a poor predictor of δ¹³C_R, in contrast to more mesic ecosystems. Responses of respiration components to precipitation pulses were explained by differences in soil moisture thresholds between C₃ and C₄ species. Stable isotopic composition of respiration in semi-arid ecosystems is more temporally and spatially variable than in mesic ecosystems owing to dynamic aspects of pulse precipitation episodes and biological drivers.     

Bat breath reveals metabolic substrate use in free-ranging vampires

We analysed the stable carbon isotope ratio in exhaled CO₂ (δ¹³C_breath) of free-ranging vampires to assess the type of metabolized substrate (endogenous or exogenous substrate) and its origin, i.e. whether the carbon atoms came from a C₄ food web (grass and cattle) or the C₃ food web in which they were captured (a rainforest remnant and its mammals). For an improved understanding of factors influencing the δ¹³C_breath of vampires, we conducted feeding experiments with captive animals. The mean δ¹³C_breath of starved bats was depleted in ¹³C in relation to the diet by 4.6‰ (n = 10). Once fed with blood, δ¹³C_breath levelled off within a short time approximately 2.2‰ above the stable carbon isotope signature of the diet. The median time required to exchange 50% of the carbon atoms in exhaled CO₂ with carbon atoms from the ingested blood was 18.6 min (mean 29.5 ± 19.0 min, n = 5). The average δ¹³C of wing membrane and fur in free-ranging vampire bats suggested that bats almost exclusively foraged for cattle blood during the past weeks. The δ¹³C_breath of the same bats averaged −19.1‰. Given that all free-ranging vampires were starving and that the δ¹³C of cattle was more in enriched in ¹³C by 5–6‰ than the δ¹³C_breath of vampires, we conclude that the vampire bats of our study metabolised fat that was predominantly built from carbon atoms originating from cattle blood. Since δ¹³C of wing membrane and fur integrates over weeks and months respectively and δ¹³C_breath over hours and days, we also conclude that vampire bats of the studied population consistently ignored rainforest mammals and chose cattle as their prey during and prior to our study.     

Effects of side-chain orientation on the <Superscript>13</Superscript>C chemical shifts of antiparallel β-sheet model peptides

The dependence of the ¹³C chemical shift on side-chain orientation was investigated at the density functional level for a two-strand antiparallel β-sheet model peptide represented by the amino acid sequence Ac-(Ala)₃-X-(Ala)₁₂-NH₂ where X represents any of the 17 naturally occurring amino acids, i.e., not including alanine, glycine and proline. The dihedral angles adopted for the backbone were taken from, and fixed at, observed experimental values of an antiparallel β-sheet. We carried out a cluster analysis of the ensembles of conformations generated by considering the side-chain dihedral angles for each residue X as variables, and use them to compute the ¹³C chemical shifts at the density functional theory level. It is shown that the adoption of the locally-dense basis set approach for the quantum chemical calculations enabled us to reduce the length of the chemical-shift calculations while maintaining good accuracy of the results. For the 17 naturally occurring amino acids in an antiparallel β-sheet, there is (i) good agreement between computed and observed ¹³C^α and ¹³C^β chemical shifts, with correlation coefficients of 0.95 and 0.99, respectively; (ii) significant variability of the computed ¹³C^α and ¹³C^β chemical shifts as a function of χ¹ for all amino acid residues except Ser; and (iii) a smaller, although significant, dependence of the computed ¹³C^α chemical shifts on χ^ξ (with ξ ≥ 2) compared to χ¹ for eleven out of seventeen residues. Our results suggest that predicted ¹³C^α and ¹³C^β chemical shifts, based only on backbone (φ,ψ) dihedral angles from high-resolution X-ray structure data or from NMR-derived models, may differ significantly from those observed in solution if the dihedral-angle preferences for the side chains are not taken into account. Electronic supplementary material Supplementary material is available in the online version of this article at and is accessible for authorized users.     

Influence of stand structure on carbon-13 of vegetation, soils, and canopy air within deciduous and evergreen forests in Utah, United States

Carbon isotope ratios (δ¹³C) were studied in evergreen and deciduous forest ecosystems in semi-arid Utah (Pinus contorta, Populus tremuloides, Acer negundo and Acer grandidentatum). Measurements were taken in four to five stands of each forest ecosystem differing in overstory leaf area index (LAI) during two consecutive growing seasons. The δ¹³C_leaf (and carbon isotope discrimination) of understory vegetation in the evergreen stands (LAI 1.5–2.2) did not differ among canopies with increasing LAI, whereas understory in the deciduous stands (LAI 1.5–4.5) exhibited strongly decreasing δ¹³C_leaf values (increasing carbon isotope discrimination) with increasing LAI. The δ¹³C values of needles and leaves at the top of the canopy were relatively constant over the entire LAI range, indicating no change in intrinsic water-use efficiency with overstory LAI. In all canopies, δ¹³C_leaf decreased with decreasing height above the forest floor, primarily due to physiological changes affecting c _i/c _a (> 60%) and to a minor extent due to δ¹³C of canopy air (< 40%). This intra-canopy depletion of δ¹³C_leaf was lowest in the open stand (1‰) and greatest in the denser stands (4.5‰). Although overstory δ¹³C_leaf did not change with canopy LAI, δ¹³C of soil organic carbon increased with increasing LAI in Pinus contorta and Populus tremuloides ecosystems. In addition, δ¹³C of decomposing organic carbon became increasingly enriched over time (by 1.7–2.9‰) for all deciduous and evergreen dry temperate forests. The δ¹³C_canopy of CO₂ in canopy air varied temporally and spatially in all forest stands. Vertical canopy gradients of δ¹³C_canopy, and [CO₂]_canopy were larger in the deciduous Populus tremuloides than in the evergreen Pinu contorta stands of similar LAI. In a very wet and cool year, ecosystem discrimination (Δ_e) was similar for both deciduous Populus tremulodies (18.0 ± 0.7‰) and evergreen Pinus contorta (18.3 ± 0.9‰) stands. Gradients of δ¹³C_canopy and [CO₂]_canopy were larger in denser Acer spp. stands than those in the open stand. However, ¹³C enrichment above and photosynthetic draw-down of [CO₂]_canopy below tropospheric baseline values were larger in the open than in the dense stands, due to the presence of a vigorous understory vegetation. Seasonal patterns of the relationship δ¹³C_canopy versus 1/[CO₂]_canopy were strongly influenced by precipitation and air temperature during the growing season. Estimates of Δ_e for Acer spp. did not show a significant effect of stand structure, and averaged 16.8 ± 0.5‰ in 1933 and 17.4 ± 0.7‰ in 1994. However, Δ_e varied seasonally with small fluctuations for the open stand (2‰), but more pronounced changes for the dense stand (5‰). Received: 15 April 1996 / Accepted: 19 October 1996     

Stable isotope characteristics across narrow savanna/woodland ecotones in Wolfe Creek Meteorite Crater,Western Australia

The stable isotopic composition (δ¹³C) of sediments from lakes are frequently analyzed to reconstruct the proportion of the regional vegetation that used either the C₃ or C₄ photosynthetic pathways, often without conducting a detailed survey of the current local vegetation. We performed a study on the modern vegetation composition within the Wolfe Creek Meteorite Crater to complement our future paleoecological investigation of the crater. A bull’s-eye pattern exists where C₄ grasses dominate an outer ring and salt tolerant species, including shrubs, herbs, chenopods, and halophytic algae, dominate the inner pan of the crater. The ecotone between the inner and outer zones is narrow and occupied by tall (>7 m) Acacia ampliceps, with some C₄ grasses in the understory. Along with the highest water table and most saline soils the center of the crater has C₃ plants present with the highest δ¹³C and δ¹⁵N values. The range of δ¹³C and δ¹⁵N values from the analysis of surface soil organic matter (OM) was much smaller compared with the range of values from plant materials implying that either: (1) the current plant OM has not yet been integrated into the soils, or (2) processes within the soil have acted to homogenize isotopic variability within the crater. The application of a two end member mixing model to calculate %C₄ and %C₃ biomass from the δ¹³C of surface soil OM was complicated by: (1) the crater containing both a dry habitat with C₄ grasses and a central pan with C₄ halophytic plants and, (2) the large variation in the δ¹³C of the plants and soil OM.     

The carbon origin of arbuscular mycorrhizal fungi estimated from δ13C values of individual spores

 The origin of carbon in the spores of arbuscular mycorrhizal (AM) fungi was quantified based on their obligate symbiosis with C₃ and C₄ plants showing clearly different δ¹³C values. The δ¹³C values of individual spores of the AM fungus Gigaspora margarita were analyzed. In monoculture pots of a C₃ or a C₄ plant species, spore δ¹³C values were ca. 3.5‰ lower than those of host roots. In coculture pots of a C₃ and a C₄ plant species, spore δ¹³C values varied between those of the roots of C₃ and C₄ plants, and increased linearly from the C₃ to the proximity of the C₄ plant (P<0.01). This reflects the higher δ¹³C values in C₄ plants than in C₃ plants. Thus the carbon origin of G. margarita spores changed with growth state and combination of host plants. In the presence of fresh plant residue instead of living host plants, spore δ¹³C values did not vary with distance from the residue. This finding supports the current view that AM fungi are obligate symbionts. Accepted: 12 February 1999     

Disentangling drought-induced variation in ecosystem and soil respiration using stable carbon isotopes

Combining C flux measurements with information on their isotopic composition can yield a process-based understanding of ecosystem C dynamics. We studied the variations in both respiratory fluxes and their stable C isotopic compositions (δ¹³C) for all major components (trees, understory, roots and soil microorganisms) in a Mediterranean oak savannah during a period with increasing drought. We found large drought-induced and diurnal dynamics in isotopic compositions of soil, root and foliage respiration (δ¹³C_res). Soil respiration was the largest contributor to ecosystem respiration (R _eco), exhibiting a depleted isotopic signature and no marked variations with increasing drought, similar to ecosystem respired δ¹³CO₂, providing evidence for a stable C-source and minor influence of recent photosynthate from plants. Short-term and diurnal variations in δ¹³C_res of foliage and roots (up to 8 and 4‰, respectively) were in agreement with: (1) recent hypotheses on post-photosynthetic fractionation processes, (2) substrate changes with decreasing assimilation rates in combination with increased respiratory demand, and (3) decreased phosphoenolpyruvate carboxylase activity in drying roots, while altered photosynthetic discrimination was not responsible for the observed changes in δ¹³C_res. We applied a flux-based and an isotopic flux-based mass balance, yielding good agreement at the soil scale, while the isotopic mass balance at the ecosystem scale was not conserved. This was mainly caused by uncertainties in Keeling plot intercepts at the ecosystem scale due to small CO₂ gradients and large differences in δ¹³C_res of the different component fluxes. Overall, stable isotopes provided valuable new insights into the drought-related variations of ecosystem C dynamics, encouraging future studies but also highlighting the need of improved methodology to disentangle short-term dynamics of isotopic composition of R _eco.     

An isotopic method for testing the influence of leaf litter quality on carbon fluxes during decomposition

During microbial breakdown of leaf litter a fraction of the C lost by the litter is not released to the atmosphere as CO₂ but remains in the soil as microbial byproducts. The amount of this fraction and the factors influencing its size are not yet clearly known. We performed a laboratory experiment to quantify the flow of C from decaying litter into the soil, by means of stable C isotopes, and tested its dependence on litter chemical properties. Three sets of ¹³C-depleted leaf litter (Liquidambar styraciflua L., Cercis canadensis L. and Pinus taeda L.) were incubated in the laboratory in jars containing ¹³C-enriched soil (i.e. formed C4 vegetation). Four jars containing soil only were used as a control. Litter chemical properties were measured using thermogravimetry (Tg) and pyrolysis–gas chromatography/mass spectrometry–combustion interface–isotope ratio mass spectrometry (Py–GC/MS–C–IRMS). The respiration rates and the δ¹³C of the respired CO₂ were measured at regular intervals. After 8 months of incubation, soils incubated with both L. styraciflua and C. canadensis showed a significant change in δ¹³C (δ¹³C_final = −20.2 ± 0.4‰ and −19.5 ± 0.5‰, respectively) with respect to the initial value (δ¹³C_initial = −17.7 ± 0.3‰); the same did not hold for soil incubated with P. taeda (δ¹³C_final:−18.1 ± 0.5‰). The percentages of litter-derived C in soil over the total C loss were not statistically different from one litter species to another. This suggests that there is no dependence of the percentage of C input into the soil (over the total C loss) on litter quality and that the fractional loss of leaf litter C is dependent only on the microbial assimilation efficiency. The percentage of litter-derived C in soil was estimated to be 13 ± 3% of total C loss.