Preservation of spatial and environmental gradients by death assemblages

Paleobiology ◽  
2009 ◽  
Vol 35 (1) ◽  
pp. 119-145 ◽  
Author(s):  
Adam Tomašových ◽  
Susan M. Kidwell

Although only a few studies have explicitly evaluated live-dead agreement of species and community responses to environmental and spatial gradients, paleoecological analyses implicitly assume that death assemblages capture these gradients accurately. We use nine data sets from modern, relatively undisturbed coastal study areas to evaluate how the response of living molluscan assemblages to environmental gradients (water depth and seafloor type; “environmental component” of a gradient) and geographic separation (“spatial component”) is captured by their death assemblages. We find that:1. Living assemblages vary in composition either in response to environmental gradients alone (consistent with a species-sorting model) or in response to a combination of environmental and spatial gradients (mass-effect model). None of the living assemblages support the neutral model (or the patch-dynamic model), in which variation in species abundance is related to the spatial configuration of stations alone. These findings also support assumptions that mollusk species consistently differ in responses to environmental gradients, and suggest that in the absence of postmortem bias, environmental gradients might be accurately captured by variation in species composition among death assemblages. Death assemblages do in fact respond uniquely to environmental gradients, and show a stronger response when abundances are square-root transformed to downplay the impact of numerically abundant species and increase the effect of rare species.2. Species' niche positions (position of maximum abundance) along bathymetric and sedimentary gradients in death assemblages show significantly positive rank correlations to species positions in living assemblages in seven of nine data sets (both square-root-transformed and presence-absence data).3. The proportion of compositional variation explained by environmental gradients in death assemblages is similar to that of counterpart living assemblages. Death assemblages thus show the same ability to capture environmental gradients as do living assemblages. In some instances compositional dissimilarities in death assemblages show higher rank correlation with spatial distances than with environmental gradients, but spatial structure in community composition is mainly driven by spatially structured environmental gradients.4. Death assemblages correctly identify the dominance of niche metacommunity models in mollusk communities, as revealed by counterpart living assemblages. This analysis of the environmental resolution of death assemblages thus supports fine-scale niche and paleoenvironmental analyses using molluscan fossil records. In spite of taphonomic processes and time-averaging effects that modify community composition, death assemblages largely capture the response of living communities to environmental gradients, partly because of redundancy in community structure that is inherently associated with multispecies assemblages. The molluscan data sets show some degree of redundancy as evidenced by the presence of at least two mutually exclusive subsets of species that replicate the community structure, and simple simulations show that between-sample relationships can be preserved and remain significant even when a large proportion of species is randomly removed from data sets.

Paleobiology ◽  
2001 ◽  
Vol 27 (4) ◽  
pp. 669-694 ◽  
Author(s):  
Evan N. Edinger ◽  
John M. Pandolfi ◽  
Russell A. Kelley

This paper assesses the reliability with which fossil reefs record the diversity and community structure of adjacent Recent reefs. The diversity and taxonomic composition of Holocene raised fossil reefs was compared with those of modern reef coral life and death assemblages in adjacent moderate and low-energy shallow reef habitats of Madang Lagoon, Papua New Guinea. Species richness per sample area and Shannon-Wiener diversity (H′) were highest in the fossil reefs, intermediate in the life assemblages, and lowest in the death assemblages. The taxonomic composition of the fossil reefs was most similar to the combination of the life and death assemblages from the modern reefs adjacent to the two fossil reefs. Depth zonation was recorded accurately in the fossil reefs. The Madang fossil reefs represent time-averaged composites of the combined life and death assemblages as they existed at the time the reef was uplifted.Because fossil reefs include overlapping cohorts from the life and death assemblages, lagoonal facies of fossil reefs are dominated by the dominant sediment-producing taxa, which are not necessarily the most abundant in the life assemblage. Rare or slow-growing taxa accumulate more slowly than the encasing sediments and are underrepresented in fossil reef lagoons. Time-averaging dilutes the contribution of rare taxa, rather than concentrating their contribution. Consequently, fidelity indices developed for mollusks in sediments yield low values in coral reef death and fossil assemblages. Branching corals dominate lagoonal facies of fossil reefs because they are abundant, they grow and produce sediment rapidly, and most of the sediment they produce is not exported.Fossil reefs distinguished kilometer-scale variations in community structure more clearly than did the modern life assemblages. This difference implies that fossil reefs may provide a better long-term record of community structure than modern reefs. This difference also suggests that modern kilometer-scale variation in coral reef community structure may have been reduced by anthropogenic degradation, even in the relatively unimpacted reefs of Madang Lagoon. Holocene and Pleistocene fossil reefs provide a time-integrated historical record of community composition and may be used as long-term benchmarks for comparison with modern, degraded, nearshore reefs. Comparisons between fossil reefs and degraded modern reefs display gross changes in community structure more effectively than they demonstrate local extinction of rare taxa.


Paleobiology ◽  
2007 ◽  
Vol 33 (1) ◽  
pp. 1-23 ◽  
Author(s):  
Thomas D. Olszewski ◽  
Susan M. Kidwell

The richness (number of species) and evenness (uniformity of species abundances) of death assemblages can differ from corresponding living communities due to processes such as between-habitat transport, environmental condensation, and differential taphonomic destruction. Analysis of 132 single-census live-dead comparisons of benthic molluscs from a variety of soft-bottom marine settings indicates that on average evenness does not differ greatly between live and dead assemblages, regardless of the particular depositional setting or grain size of associated sediment. However, individual death assemblages can deviate quite substantially from their corresponding living assemblages, especially if processed using a fine mesh. In addition, death assemblages collected using sieves with 2 mm mesh or coarser showed consistently and significantly greater evenness than corresponding living assemblages. These results are encouraging for broad-scale assessments of evenness in the fossil record based on the comparison of average values (rather than for individual assemblages) and where trends in evenness are the aim of the study.Our live-dead comparisons of richness sample-size corrected by rarefaction revealed that death assemblages were on average ~1.45 times richer than the corresponding living assemblages regardless of rarefied size. In 63.6% of death assemblages both dead richness and dead evenness were greater than live, suggesting sufficient time-averaging to catch significant random or directional changes in the living community and/or introduction of individuals from outside the sampled habitat. In 12.9% of collections both dead richness and dead evenness were less than live, suggesting either rapid loss of dead shells so that dead diversity is depressed below the local living community or selective loss of taphonomically vulnerable taxa. In 18.2% of data sets dead richness was elevated but dead evenness was depressed relative to live: these are interpreted to reflect the addition of low-evenness allochthonous material. The remaining 4.5% of data sets had elevated dead evenness but depressed dead richness, suggesting that live and dead in this case may not be closely related.In seven available time series, temporal volatility in living communities over 6–24 months was considerable but could not account for observed (mostly higher) evenness values in corresponding death assemblages, whose evenness and composition were quite stable in the few examined studies. A densely sampled spatial transect shows that changes in living-assemblage evenness along an environmental gradient were preserved in the corresponding death assemblages, although dead evenness at any location on the gradient was substantially higher than living evenness.


Paleobiology ◽  
2015 ◽  
Vol 41 (1) ◽  
pp. 154-173 ◽  
Author(s):  
Gabriela S. Hassan

AbstractComparisons between death assemblages and their source living communities are among the most common actualistic methods of evaluating the preservation of compositional and environmental information in fossil assemblages. Although live-dead studies have commonly focused on marine mollusks, the potential of diatoms to preserve ecological information in continental settings has been overlooked. Thus, little is known about the nature and magnitude of the taphonomic biases affecting live-dead agreement of diatom assemblages, despite their extensive application as modern and fossil bioindicators in paleoecological and paleoenvironmental reconstructions. In this study, I analyzed three live-dead data sets in order to evaluate the compositional and environmental fidelity exhibited by diatom death assemblages in shallow lakes. I find that diatom death assemblages (DAs) do differ significantly in their taxonomic composition from living assemblages (LAs), mainly as a consequence of (1) differences in the temporal resolution between time-averaged DAs and non-averaged LAs, and (2) differential preservation of diatom taxa related to the intrinsic properties of their valves. Despite compositional dissimilarities, DAs were able to capture the same environmental gradients as LAs, with high significance. This decoupling between live-dead agreement in community composition and community response to gradients can be related to the existence of at least two mutually exclusive subsets of species that significantly captured compositional dissimilarities based on the full set of the species in the three lakes. This functional redundancy implies that the between-sample relationships of living assemblages can be significantly preserved by DAs even if some taxa are removed by taphonomic processes. The preservation of environmental gradients thus does not require good preservation of all living taxa. Structural redundancy compensates for the loss of compositional fidelity caused by postmortem processes in the diatom data set.


2020 ◽  
Vol 11 ◽  
Author(s):  
Ke Song ◽  
Yafei Sun ◽  
Qin Qin ◽  
Lijuan Sun ◽  
Xianqing Zheng ◽  
...  

BackgroundTo promote the decomposition of returned straw, reduce the incidence of soil-borne diseases caused by returned straw, and accelerate the conversion of straw carbon into soil carbon, we inoculated earthworms into fields with returned straw. The earthworms accelerated straw degradation and promoted carbon conversion. However, the impact of externally inoculated earthworms on the farmland soil ecosystem, especially the structure and the function of its microbial community, remains unclear.MethodsWe analyzed the effects of straw return and earthworms on the diversity of fungal populations and the community structure of dominant fungal taxa in soil by quantifying fungal population size and community composition via PCR amplification of internal transcribed spacer genes and 18S rRNA gene sequencing.ResultsThe results showed that earthworm inoculation significantly accelerated the degradation of rice straw and promoted the conversion of straw carbon to soil carbon. Both fungal abundance and α-diversity (Sobs and Shannon indices) were higher in the plots with surface straw but without earthworms than in those inoculated with earthworms and in the CK. Principal component analysis indicated that straw return increased the diversity and the abundance of the fungal community, whereas earthworms inhibited this expansion of the fungal community caused by straw return. Interestingly, the overall differences in fungal community composition were smallest in plots with straw return, while the dominant fungal community features in plots inoculated with earthworms were closer to those of the CK.ConclusionGenerally, straw return stimulated unclassified_K_fungi, Pseudeurotium, and Fusarium with strong cellulolytic ability. In contrast, the abundances of Stachybotrys, unclassified_c_Sordariomycetes, unclassified_f_Lasiosphaeriaceae, and Schizothecium were higher in the plots inoculated with earthworms and in the CK. Furthermore, evolutionary analysis showed that the evolution of soil fungal communities tended to diverge after straw return, and the evolutionary directions of fungal species in the plots inoculated with earthworms were similar to those in the CK.


Paleobiology ◽  
2011 ◽  
Vol 37 (2) ◽  
pp. 332-354 ◽  
Author(s):  
Adam Tomaŝových ◽  
Susan M. Kidwell

Quantifying the effects of taphonomic processes on species abundances in time-averaged death assemblages (DAs) is pivotal for paleoecological inference. However, fidelity estimates based on conventional “live-dead” comparisons are fundamentally ambiguous: (1) data on living assemblages (LAs) are based on a very short period of sampling and thus do not account for biological variability in the LA, (2) LAs are sampled at the same time as the DA and thus do not necessarily reflect past LAs that contributed to the DA, (3) compositions of LAs and DAs can be autocorrelated owing to shared cohorts, and (4) fidelity estimates are cross-scale estimates because DAs are time-averaged and LAs are not. Some portion of raw (total) live-dead (LD) variation in species composition thus arises from incomplete sampling of LAs and from biological temporal variation among LAs (together = premortem component of LD variation), as contrasted withnewvariation created by interspecific variation in population turnover and preservation rates and by the time-averaging of skeletal input (together = postmortem component of LD variation). To tackle these problems, we introduce a modified test for homogeneity of multivariate dispersions (HMD) in order to (1) account for temporal autocorrelation in composition between LAs and DAs and (2) decompose total LD compositional variation into premortem and postmortem components, and we use simulations to evaluate the contribution of within-habitat time-averaging on the postmortem component. Applying this approach to 31 marine molluscan data sets, each consisting of spatial replicates of LAs and DAs in a single habitat, we find that total LD variation is driven largely by variation among LAs. However, genuinely postmortem processes have significant effects on composition in 25–65% of data sets (depending on the metric) when the effects of temporal autocorrelation are taken into account using HMD. Had we ignored the effects of autocorrelation, the effects of postmortem processes would have been negligible, inflating the similarity between LAs and DAs. Simulations show that within-habitat time-averaging does not increase total LD variation to a large degree—it increases total LD variation mainly via increasing species richness, and decreases total LD variation by reducing dispersion among DAs. The postmortem component of LD variation thus arises from differential turnover and preservation and multi-habitat time-averaging. Moreover, postmortem processes have less effect on the compositions of DAs in habitats characterized by high variability among LAs than they have on DAs in temporally stable habitats, a previously unrecognized first-order factor in estimating postmortem sources of compositional variation in DAs.


2016 ◽  
Author(s):  
Luis C. T. Herrera ◽  
Gabriela Castellano ◽  
Ana C. Coan ◽  
M. Ludwing ◽  
C. L. César

AbstractA network analysis of the resting state (RS) and language task (LT) of fRMI data sets is presented. Specifically, the analysis compares the impact of the global signal regression of gray matter signal on the graph parameters and community structure derived of functional data. It was found that, without gray matter signal regression (GSR), the group comparison showed no significant changes of the global metrics between the two conditions studied. With gray matter signal regression, significant differences between the global (local) metrics for the conditions were obtained. The mean degree, the clustering coefficient of the network and the mean value of the local efficiency were metrics with significant changes. The community structure of group connectivity matrices was explored for both conditions (RS and LT) and for different preprocessing steps. When gray matter signal regression was performed, small changes of the community structure were observed. Approximately, the same regions were classified in the same communities before and after GSR. This means, that the community structure of the data is weakly affected by this preprocessing step. The modularity index presented significant changes between conditions (RS and LT) and between different preprocessing pipeline.


Paleobiology ◽  
2009 ◽  
Vol 35 (1) ◽  
pp. 94-118 ◽  
Author(s):  
Adam Tomašových ◽  
Susan M. Kidwell

Despite extensive paleoecological analyses of spatial and temporal turnover in species composition, the fidelity with which time-averaged death assemblages capture variation in species composition and diversity partitioning of living communities remains unexplored. Do death assemblages vary in composition between sites to a lesser degree than do living assemblages, as would be predicted from time-averaging? And is the higher number of species observed in death relative to living assemblages reduced with increasing spatial scale? We quantify the preservation of spatial and temporal variation in species composition using 11 regional data sets based on samples of living molluscan communities and their co-occurring time-averaged death assemblages. (1) Compositional dissimilarities among living assemblages (LA) within data sets are significantly positively rank-correlated to dissimilarities among counterpart pairs of death assemblages (DA), demonstrating that pairwise dissimilarity within a study area has a good preservation potential in the fossil record. Dissimilarity indices that downplay the abundance of dominant species return the highest live-dead agreement of variation in species composition. (2) The average variation in species composition (average dissimilarity) is consistently smaller in DAs than in LAs (9 of 11 data sets). This damping of variation might arise from DAs generally having a larger sample size, but the reduction by ∼10–20% mostly persists even in size-standardized analyses (4 to 7 of 11 data sets, depending on metric). Beta diversity expressed by the number of compositionally distinct communities is also significantly reduced in death assemblages in size-standardized analyses (by ∼25%). This damping of variation and reduction in beta diversity is in accord with the loss of temporal resolution expected from time-averaging, without invoking taphonomic bias (from differential preservation or postmortem transportation) or sample-size effects. The loss of temporal resolution should directly reduce temporal variation, and assuming time-for-space substitution owing to random walk within one habitat and/or temporal habitat shifting, it also decreases spatial variation in species composition. (3) DAs are more diverse than LAs at the alpha scale, but the difference is reduced at gamma scales because partitioning of alpha and beta components differs significantly between LAs and DAs. This indicates that the effects of time-averaging are reduced with increasing spatial scale. Thus, overall, time-averaged molluscan DAs do capture variation among samples of the living assemblage, but they tend to damp the magnitude of variation, making them a conservative means of inferring change over time or variation among regions in species composition and diversity. Rates of temporal and spatial species turnover documented in the fossil record are thus expected to be depressed relative to the turnover rates that are predicted by models of community dynamics, which assume higher temporal resolution. Finally, the capture by DAs of underlying variation in the LA implies little variation in the net preservation potential of death assemblages across environments, despite the different taphonomic pathways suggested by taphofacies studies.


Weed Science ◽  
2017 ◽  
Vol 65 (4) ◽  
pp. 504-514 ◽  
Author(s):  
Stéphane Cordeau ◽  
Richard G. Smith ◽  
Eric R. Gallandt ◽  
Bryan Brown ◽  
Paul Salon ◽  
...  

Tillage is a foundational management practice in many cropping systems. Although effective at reducing weed populations and preparing a crop seedbed, tillage and cultivation can also dramatically alter weed community composition. We examined the impact of soil tillage timing on weed community structure at four sites across the northeastern United States. Soil was tilled every 2 wk throughout the growing season (late April to late September 2013), and weed seedling density was quantified by species 6 wk after each tillage event. We used a randomized complete block design with four replicates for each tillage-timing treatment; a total of 196 plots were sampled. The timing of tillage was an important factor in shaping weed community composition and structure at all sites. We identified three main periods of tillage timing that resulted in similar communities. Across all sites, total weed density tended to be greatest and weed evenness tended to be lowest when soils were tilled early in the growing season. From the earliest to latest group of timings, total abundance decreased on average from 428±393 to 159±189 plants m−2, and evenness increased from 0.53±0.25 to 0.72±0.20. The effect of tillage timing on weed species richness varied by site. Our results show that tillage timing affects weed community structure, suggesting that farmers can manage weed communities and the potential for weed interference by adjusting the timing of their tillage and cropping practices.


2020 ◽  
Vol 637 ◽  
pp. 159-180
Author(s):  
ND Gallo ◽  
M Beckwith ◽  
CL Wei ◽  
LA Levin ◽  
L Kuhnz ◽  
...  

Natural gradient systems can be used to examine the vulnerability of deep-sea communities to climate change. The Gulf of California presents an ideal system for examining relationships between faunal patterns and environmental conditions of deep-sea communities because deep-sea conditions change from warm and oxygen-rich in the north to cold and severely hypoxic in the south. The Monterey Bay Aquarium Research Institute (MBARI) remotely operated vehicle (ROV) ‘Doc Ricketts’ was used to conduct seafloor video transects at depths of ~200-1400 m in the northern, central, and southern Gulf. The community composition, density, and diversity of demersal fish assemblages were compared to environmental conditions. We tested the hypothesis that climate-relevant variables (temperature, oxygen, and primary production) have more explanatory power than static variables (latitude, depth, and benthic substrate) in explaining variation in fish community structure. Temperature best explained variance in density, while oxygen best explained variance in diversity and community composition. Both density and diversity declined with decreasing oxygen, but diversity declined at a higher oxygen threshold (~7 µmol kg-1). Remarkably, high-density fish communities were observed living under suboxic conditions (<5 µmol kg-1). Using an Earth systems global climate model forced under an RCP8.5 scenario, we found that by 2081-2100, the entire Gulf of California seafloor is expected to experience a mean temperature increase of 1.08 ± 1.07°C and modest deoxygenation. The projected changes in temperature and oxygen are expected to be accompanied by reduced diversity and related changes in deep-sea demersal fish communities.


2018 ◽  
Author(s):  
Kristopher M. Kusnerik ◽  
◽  
Harley Means ◽  
Roger W. Portell ◽  
Michal Kowalewski

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