REDUCED RODENT BIODIVERSITY DESTABILIZES PLANT POPULATIONS

Survey for Morro Bay Kangaroo Rat: A Rare Mammal of Uncertain Status

The Morro Bay kangaroo rat Dipodomys heermanni morroensis is a small, nocturnal, burrowing rodent endemic to the vicinity of Morro Bay in San Luis Obispo County, California. It was listed as endangered pursuant to the U.S. Endangered Species Act in 1973. Despite many searches over three decades, the Morro Bay kangaroo rat has not been captured or sighted in the wild since 1986. While recognizing that the Morro Bay kangaroo rat may be extinct, two of us in a previous paper also speculated it may be persisting at extremely low density in isolated colonies and recommended surveying with wildlife scent-detection dogs and baited camera traps. We searched with a wildlife scent-detection dog and baited camera traps in four historically occupied areas and detected no Morro Bay kangaroo rats. Unfortunately, our data combined with all other existing data do not allow us to conclude whether the Morro Bay kangaroo rat is extinct or extant. Essentially, the International Union for the Conservation of Nature international standard has not been met to make a definitive determination of extinction. That is, a species should be considered extinct only when there is no reasonable doubt that the last individual has died. We acknowledge that because of resource limitation we surveyed only a small sample of the numerous patches of habitat in the expansive landscape. Further, we now consider the Morro Bay sand spit (total area 4.35 km2, foredunes 3.75 km2), a peripheral area, as potentially part of the geographic range with suitable habitat, and it has never been searched. Therefore, considering all available information, we conclude that the Morro Bay kangaroo rat must be considered as possibly extant. We recommend that search efforts continue in several specific areas, including the Morro Bay sand spit. If the Morro Bay kangaroo rat still exists, it will be challenging and difficult to rediscover because of its likely low density and patchy distribution in the expansive landscape, combined with its small size, nocturnal nature, and secretive lifestyle.

Seasonal variation in biological trait distribution of periphytic protozoa in coastal ecosystem: A baseline study for marine bioassessment

To reveal the seasonal variability in biological trait distribution for monitoring surveys based on periphytic protozoa, a baseline survey was carried out in a coastal region of Yellow Sea, northern China. A total of 40 slide samples were collected in a four season cycle after an exposure time period of 14 days. The results demonstrated that: (1) the community-weighted means (CWM) of algivores with large and medium sizes were high in spring and summer, while bacterivores with small size were high in autumn and winter; (2) there was a significant seasonal variation in the protozoan community functions, especially from spring/summer to autumn and winter; and (3) functional diversity indices generally peaked in spring or summer. Thus, there was a significant seasonal variation in protozoan community functions and this approach may be used to determine an optimal sampling strategy for monitoring programs in marine ecosystems.

Invasion intensity influences scale-dependent effects of an exotic species on native plant diversity

Invasive plant species reduce the diversity of natives by altering habitats or disturbance regimes, but it is less clear whether they do so via competitive exclusion. Here, we show that invader abundance alters scale-dependent competitive effects of invasion on native plant richness. Large-seeded exotic annual Erodium cicutarium invaded a site that manipulated rodent granivores. The invader became dominant on all plots but attained its highest abundance on plots that removed rodents. Invasion reduced plant abundance but not evenness; site-wide richness did not change over time on control plots but declined significantly on rodent removal plots. Species-area relationships within plots changed differently with invasion intensity: slopes increased and y-intercepts decreased on control plots relative to rodent removal plots. Changes in species-area slopes and y-intercepts following invasion suggest that common rather than rare species were most strongly impacted at small spatial scales on control plots, while common and rare species were both negatively impacted at all spatial scales on rodent removal plots. Small-seeded species declined in abundance following invasion more so than large-seeded species, indicative of competitive interactions mediated by seed size. These results reveal variation in scale-dependent competitive effects of invasion on native richness associated with invasion intensity.

The importance of productivity and seasonality for structuring small rodent diversity across a tropical elevation gradient

Photosynthetic productivity is a key determinant of the abundance and distribution of biodiversity around the world. The effect of this productivity on the distribution patterns of mammals is frequently invoked; however, it is seldom measured directly. In this study, we used Sherman live traps set in dry and rainy seasons across a 2300-m elevation gradient in southwestern Mexico to assess small rodent species distributions, and to relate these patterns to habitat structure, climate, and a well-accepted measure of photosynthetic productivity: the normalized difference vegetation index (NDVI). While habitat structure and climate helped explain some of the patterns observed, NDVI proved to be the most important contributing variable for most of the distribution models. We also found that partitioning the gradient-distribution model by trapping season revealed strong differences in terms of the effect of NDVI and the other explanatory variables. For example, lower elevations were associated with seasonal and year-round reductions in rodent diversity and were composed almost exclusively of granivore-based species assemblages. By contrast, the middle and upper elevations were more species rich, less affected by seasonality, and characterized by omnivorous species. Our results suggest that the positive productivity-diversity relationship found may be due, at least in part, to increased food resources and niche opportunities at more productive elevations. Increased diversity at the higher elevations may also be partially due to reductions in competition that result from productivity increases, as well as from the broader spectrum of feeding guild representation that it and the lack of seasonality allow.

Remote Cameras Reveal Experimental Artifact in a Study of Seed Predation in a Semi-Arid Shrubland

Granivorous animals may prefer to predate or cache seed of certain plant species over others. Multiple studies have documented preference for larger, non-native seed by granivores. To accomplish this, researchers have traditionally used indirect inference by relating patterns of seed removal to the species composition of the granivorous animal community. To measure seed removal, researchers present seed to granivorous animals in the field using equipment intended to exclude certain animal taxa while permitting access to others. This approach allows researchers to differentiate patterns of seed removal among various taxa (e.g., birds, small mammals, and insects); however, it is unclear whether the animals of interest are freely using the exclusion devices, which may be a hindrance to discovering the seed dishes. We used video observation to perform a study of seed predation using a custom-built, infrared digital camera and recording system. We presented native and non-native seed mixtures in partitioned Petri dishes both within and outside of exclusion cages. The exclusion cages were intended to allow entrance by rodent taxa while preventing entrance by rabbits and birds. We documented all seed removal visits by granivorous animals, which we identified to the genus level. Genera exhibited varying seed removal patterns based on seed type (native vs. non-native) and dish type (open vs. enclosed). We documented avoidance of the enclosed dishes by all but one rodent taxa, even though these dishes were intended to be used freely by rodents. This suggests that preference for non-native seed occurs differentially among granivorous animals in this system; however, interpretation of these nuanced results would be difficult without the benefit of video observation. When feasible, video observation should accompany studies using in situ equipment to ensure incorrect assumptions do not lead to inappropriate interpretation of results.

Decline of the Endangered Morro Bay Kangaroo Rat in California

The Morro Bay kangaroo rat Dipodomys heermanni morroensis occurs in the vicinity of Morro Bay (specifically in and near Los Osos) in western San Luis Obispo County in coastal central California. It was listed as endangered pursuant to the U.S. Endangered Species Conservation Act in 1970 and subsequently the U.S. Endangered Species Act in 1973. Field research from the late 1950s to the mid-1980s has documented a rapid population decline. Despite many efforts, researchers have not captured the Morro Bay kangaroo rat since 1986, and the last captive individual died in 1993. We review the biology and conservation status of the Morro Bay kangaroo rat, including taxonomy and genetics, soil type and burrows, history of decline, primary causes of decline, breeding in the wild and in captivity, habitat restoration, and threats. In particular, there are two primary causes of decline. First, development (urban, agricultural, and industrial) has resulted in direct loss of habitat. Second, in the absence of fire, the early seral stages of coastal dune scrub (optimal habitat) have matured to later successional stages of vegetation, which are denser and with substantially fewer annual food plants, and which negatively impact the locomotion of kangaroo rats and change the diversity of the small mammal community with a likely increase in competition. In 2016 only pockets of habitat remain, with optimal habitat comprising an estimated 1% of the historical geographic range. Although researchers have not demonstrated predation by domestic cats, it is likely a major threat and we suspect it has contributed to the decline based upon a review of the literature. In 2011 we observed potential signs of the Morro Bay kangaroo rat at two historical areas, which suggests it may be persisting at extremely low densities in a few isolated colonies. In addition, we could not obtain permission to survey on four private properties with potential habitat. In consideration of the vast loss and fragmentation of its habitat, along with the continuing and pervasive threats, the Morro Bay kangaroo rat is clearly conservation-reliant. We believe that without urgent human intervention, the Morro Bay kangaroo rat will soon become extinct if it is not already.

DNA barcoding of Murinae (Rodentia: Muridae) and Arvicolinae (Rodentia: Cricetidae) distributed in China

Identification of rodents is very difficult mainly due to high similarities in morphology and controversial taxonomy. In this study, mitochondrial cytochrome oxidase subunit I (COI) was used as DNA barcode to identify the Murinae and Arvicolinae species distributed in China and to facilitate the systematics studies of Rodentia. In total, 242 sequences (31 species, 11 genera) from Murinae and 130 sequences (23 species, 6 genera) from Arvicolinae were investigated, of which 90 individuals were novel. Genetic distance, threshold method, tree-based method, online BLAST and BLOG were employed to analyse the data sets. There was no obvious barcode gap. The average K2P distance within species and genera was 2.10% and 12.61% in Murinae, and 2.86% and 11.80% in Arvicolinae, respectively. The optimal threshold was 5.62% for Murinae and 3.34% for Arvicolinae. All phylogenetic trees exhibited similar topology and could distinguish 90.32% of surveyed species in Murinae and 82.60% in Arvicolinae with high support values. BLAST analyses yielded similar results with identification success rates of 92.15% and 93.85% for Murinae and Arvicolinae, respectively. BLOG successfully authenticated 100% of detected species except Leopoldamys edwardsi based on the latest taxonomic revision. Our results support the species status of recently recognized Micromys erythrotis, Eothenomys tarquinius and E. hintoni and confirm the important roles of comprehensive taxonomy and accurate morphological identification in DNA barcoding studies. We believe that, when proper analytic methods are applied or combined, DNA barcoding could serve as an accurate and effective species identification approach for Murinae and Arvicolinae based on a proper taxonomic framework.

An experimental test of the response of macroecological patterns to altered species interactions

Macroecological patterns such as the species-area relationship (SAR), the species-abundance distribution (SAD), and the species-time relationship (STR) exhibit regular behavior across ecosystems and taxa. However, determinants of these patterns remain poorly understood. Emerging theoretical frameworks for macroecology attempt to understand this regularity by ignoring detailed ecological interactions and focusing on the influence of a small number of community-level state variables, such as species richness and total abundance, on these patterns. We present results from a 15-year rodent removal experiment evaluating the response of three different macroecological patterns in two distinct annual plant communities (summer and winter) to two levels of manipulated seed predation. Seed predator manipulations significantly impacted species composition on all treatments in both communities, but did not significantly impact richness, community abundance, or macroecological patterns in most cases. How'ever, winter community abundance and richness responded significantly to the removal of all rodents. Changes in richness and abundance were coupled with significant shifts in macroecological patterns (SADs, SARs, and STRs). Because altering species interactions only impacted macroecological patterns when the state variables of abundance and richness also changed, we suggest that, in this system, local-scale processes primarily act indirectly through these properties to determine macroecological patterns.

Contrasting impacts of different-sized herbivores on species richness of Mediterranean annual pastures differing in primary productivity

Vertebrate herbivores can be key determinants of grassland plant species richness, although the magnitude of their effects can largely depend on ecosystem and herbivore characteristics. It has been demonstrated that the combined effect of primary productivity and body size is critical when assessing the impact of herbivores on plant richness of perennial-dominated grasslands; however, the interaction of site productivity and herbivore size as determinants of plant richness in annual-dominated pastures remains unknown. We experimentally partitioned primary productivity and herbivore body size (sheep and wild rabbits) to study the effect of herbivores on the plant species richness of a Mediterranean semiarid annual plant community in central Spain over six years. We also analyzed the effect of grazing and productivity on the evenness and species composition of the plant community, and green cover, litter, and plant height. We found that plant richness was higher where the large herbivore was present at high-productivity sites but barely changed at low productivity. The small herbivore did not affect species richness at either productivity site despite its large effects on species composition. We propose that adaptations to resource scarcity and herbivory prevented plant richness changes at low-productivity sites, whereas litter accumulation in the absence of herbivores decreased plant richness at high productivity. Our results are consistent with predictions arising from a long history of grazing and highlight the importance of both large and small herbivores to the maintenance of plant diversity of Mediterranean annual-dominated pastures.

Contrasting changes in taxonomic vs. functional diversity of tropical fish communities after habitat degradation

Human activities have strong impacts on ecosystem functioning through their effect on abiotic factors and on biodiversity. There is also growing evidence that species functional traits link changes in species composition and shifts in ecosystem processes. Hence, it appears to be of utmost importance to quantify modifications in the functional structure of species communities after human disturbance in addition to changes in taxonomic structure. Despite this fact, there is still little consensus on the actual impacts of human-mediated habitat alteration on the components of biodiversity, which include species functional traits. Therefore, we studied changes in taxonomic diversity (richness and evenness), in functional diversity, and in functional specialization of estuarine fish communities facing drastic environmental and habitat alterations. The Terminos Lagoon (Gulf of Mexico) is a tropical estuary of primary concern for its biodiversity, its habitats, and its resource supply, which have been severely impacted by human activities. Fish communities were sampled in four zones of the Terminos Lagoon 18 years apart (1980 and 1998). Two functions performed by fish (food acquisition and locomotion) were studied through the measurement of 16 functional traits. Functional diversity of fish communities was quantified using three independent components: richness, evenness, and divergence. Additionally, we measured the degree of functional specialization in fish communities. We used a null model to compare the functional and the taxonomic structure of fish communities between 1980 and 1998. Among the four largest zones studied, three did not show strong functional changes. In the northern part of the lagoon, we found an increase in fish richness but a significant decrease of functional divergence and functional specialization. We explain this result by a decline of specialized species (i.e., those with particular combinations of traits), while newly occurring species are redundant with those already present. The species that decreased in abundance have functional traits linked to seagrass habitats that regressed consecutively to increasing eutrophication. The paradox found in our study highlights the need for a multifaceted approach in the assessment of biodiversity changes in communities under pressure.

Shrub invasion decreases diversity and alters community stability in northern Chihuahuan Desert plant communities

Background

Global climate change is rapidly altering species range distributions and interactions within communities. As ranges expand, invading species change interactions in communities which may reduce stability, a mechanism known to affect biodiversity. In aridland ecosystems worldwide, the range of native shrubs is expanding as they invade and replace native grassland vegetation with significant consequences for biodiversity and ecosystem functioning.

Methodology

We used two long-term data sets to determine the effects of shrub encroachment by Larrea tridentata on subdominant community composition and stability in formerly native perennial grassland dominated by Bouteloua eriopoda in New Mexico, USA.

Principal Findings

Our results indicated that Larrea invasion decreased species richness during the last 100 years. We also found that over shorter temporal scales species-poor subdominant communities in areas invaded by Larrea were less stable (more variable in time) compared to species rich communities in grass-dominated vegetation. Compositional stability increased as cover of Bouteloua increased and decreased as cover of Larrea increased.

Significance

Changes in community stability due to altered interspecific interactions may be one mechanism by which biodiversity declines in grasslands following shrub invasion. As global warming increases, shrub encroachment into native grasslands worldwide will continue to alter species interactions and community stability both of which may lead to a decline in biodiversity.