Sand dune stabilization changes the vegetation characteristics and soil seed bank and their correlations with environmental factors

Currently the amount of data available on the effect of sand dune stabilization on species conservation in inter-dune lowland is very limited, especially for the sand dune systems in semi-arid regions. In this study, we determined whether the characteristics of above-ground vegetation, soil seed bank and their relationships with environmental factors changed with sand dune stabilization in the inter-dune lowlands in Horqin Sandy Land, China. Species composition, abundance and coverage of aboveground vegetation as well as soil seed bank composition and density were surveyed and their correlations with environmental factors (pH, organic matter content, total nitrogen and total phosphorus) were determined. The results showed that changes in the relationship between aboveground vegetation, soil seed bank and soil quality followed the changes in aboveground vegetation and soil seed banks. Aboveground vegetation species richness increased with sand dune stabilization, but soil seed bank species richness declined. The inter-dune lowland of active sand dunes could provide specific habitats for some endemic species and pioneer psammophyte species as indicated by data on aboveground vegetation and soil seed bank. Our results suggested that both active and stabilized sand dunes should be maintained since active sand dunes are essential for the survival of endemic or pioneer species and stabilized sand dunes are important for sustaining species richness

The impact of grazing on seedling patterns in degraded sparse‐elm grassland

Over‐grazing by livestock in semi‐arid ecosystems is one of the main causes of desertification. Although over‐grazing presents a global environmental challenge, only a few studies have investigated grazing impacts on the composition of species and functional groups of seedling bank. In this study, we determined whether the composition of seedling species and functional groups, as well as the correlations between the seedlings of sparse‐elm (Ulmus pumila var. sabulosa or U. pumila) and other species changed under three grazing intensities in the degraded sparse‐elm grassland in the Horqin Sandy Land, China. Species composition and abundance of established seedlings were surveyed and the relationships between seedlings of U. pumila and other species were analyzed. The results showed that plant communities under moderate grazing were more stable than the other two grazing intensities due to higher seedling density, higher species richness and higher number of perennial herbs. Seedlings of U. pumila could even prevent noxious seedlings growth under moderate grazing. We concluded that moderate grazing could benefit the recovery of this sparse‐elm grassland in the Horqin Sandy Land

Belowground Bud Banks and Land Use Change: Roles of Vegetation and Soil Properties in Mediating the Composition of Bud Banks in Different Ecosystems

Introduction: Belowground bud banks play integral roles in vegetation regeneration and ecological succession of plant communities; however, human-caused changes in land use severely threaten their resilience and regrowth. Although vegetation attributes and soil properties mediate such anthropogenic effects, their influence on bud bank size and composition and its regulatory mechanisms under land use change have not been explored.Methods: We conducted a field investigation to examine impacts of land use change on bud bank size and composition, vegetation attributes, and soil properties in wetlands (WL), farmlands (FL), and alpine meadow (AM) ecosystems in Zhejiang Province, China.Results: Overall, 63 soil samples in close proximity to the vegetation quadrats were excavated using a shovel, and samples of the excavated soil were placed in plastic bags for onward laboratory soil analysis. The total bud density (1514.727 ± 296.666) and tiller bud density (1229.090 ± 279.002) in wetland ecosystems were significantly higher than in farmland and alpine meadow ecosystems [i.e., total (149.333 ± 21.490 and 573.647 ± 91.518) and tiller bud density (24.666 ± 8.504 and 204.235 ± 50.550), respectively]. While vegetation attributes critically affected bud banks in WL ecosystems, soil properties strongly influenced bud banks in farmland and alpine meadow ecosystems. In wetland ecosystems, total and tiller buds were predominantly dependent on soil properties, but vegetation density played a significant role in farmlands and alpine meadow ecosystems. Root sprouting and rhizome buds significantly correlated with total C in the top 0 – 10 cm layer of farmland and alpine meadow ecosystems, respectively, and depended mainly on soil properties.Discussion: Our results demonstrate that land use change alters bud bank size and composition; however, such responses differed among bud types in wetland, farmland, and alpine meadow ecosystems

The feasibility of using soil seed bank for natural regeneration of degraded sandy grasslands

Desertification in degraded grasslands is manifested through the development of bare sandy patches, which eventually lead to habitat fragmentation. The ability of these bare sandy patches to regenerate naturally through in-situ soil seed banks is not well understood. To fill this knowledge gap, we randomly selected 24 bare sandy patches with areas ranging from 19 to 898 m2 in a desertified grassland of the Horqin sandy land, Northern China to determine whether soil seed bank can be used for natural regeneration of bare sandy patches. Species composition and density of soil seed bank as well as aboveground vegetation composition, abundance and coverage were investigated. We then determined their relationships with in-situ habitat characteristics. Our observations showed that the studied area had low soil seed bank density and species richness, as well as depauperate soil seed bank communities. Consequently, local soil seed bank was not able to provide sufficient seed source for natural regeneration. This was indicated by the relationships between aboveground vegetation, soil seed bank and the in-situ habitat characteristics. For bare patches with an area between 300 m2 and 900 m2, increase the soil seed bank density and species richness should be the main restoration measures. For bare patches with a small area of less than 50 m2, restoration of vegetation density should be the main measure. Our data highlighted that different extents of desertification, indicated by different bare patches, are requiring distinct restoration measures

Geographical distribution and determining factors of different invasive ranks of alien species across China

Determination of the geographical distribution and life-form spectra of alien species with different invasive abilities are essential to understand the process of invasion and to develop measures to manage alien species. Based on six classifications of Chinese alien species, environmental and social data, we determined species density, life-form spectrum of alien species, and the relationship between species density of alien species and climatic or social factors. The species density of alien species increased from the northwest to the southeast regions of China for all the six ranks. The boundary line between low and high species density of alien species was consistent with the dividing line of population density (the “Hu Line”). Mean annual precipitation was the most important factor for species density in malignant invaders, serious invaders, local invaders, and species requiring further observation (Ranks I, II, III, and V, respectively). Gross domestic product per square kilometer and annual minimum temperature were the most important factors in mild invaders and cultivated aliens (Ranks IV and VI, respectively). Annual and biennial herbs made up 52.9% to 71.2% of total species in Ranks I to IV; shrubs and trees 3.7% to 14.7%. The annual and biennial herbs were 35.5% and 32.6%, and the shrubs and trees were 25.3% and 31.6% in Ranks IV and VI. Results implied that precipitation was the most important factor on species density for the invasive alien species. However, social factors and temperature were the most important factors for the non-invasive alien species. The invasive alien species had a high proportion of annual and biennial herbs and non-invasive alien had a high proportion of shrubs and trees. It is important to understand the geographical distribution and life-form spectra of various invasive alien species for alien species controls

Relationship between seed morphological traits and wind dispersal trajectory

The structure and dynamics of plant populations and communities are largely influenced by seed dispersal. How the wind dispersal trajectory of seeds shifts with differences in seed morphology remains unknown. We used a wind tunnel and video camera to track the dispersal trajectory of seven species of Calligonum whose seeds have different kinds of appendages and other morphological traits, using variable wind speeds and release heights to determine the relationship between seed morphological traits and wind dispersal trajectory. Concave-, straight-line-, horizontal-projectile- and projectile-shaped trajectories were found. Dispersal trajectories such as the horizontal projectile (HP) and projectile (P) tended to have a long dispersal distance. Straight line (SL) and concave curve (CC) trajectories tended to have a short dispersal distance. Seeds with bristles and large mass tended to have SL and CC trajectories, those with wings or balloon and small mass tended to have HP and P trajectories. Wind speed tended to have a stronger influence on the dispersal trajectory of light and low-wing-loading seeds, and release height tended to have a stronger influence on the dispersal trajectory of heavy and high-wing-loading seeds. Thus, seed wind dispersal trajectory is not only determined by seed morphological characteristics but also by environmental factors such as wind speed and release height

Responses of secondary wind dispersal to environmental characteristics and diaspore morphology of seven Calligonum species

Secondary diaspore dispersal by wind, that is, wind‐driven movement along the ground surface (GS), is important for the structure and dynamics of plant populations and communities. However, how wind velocity (WV), GS, and diaspore morphology influence diaspore secondary dispersal by wind are unclear. We used a wind tunnel and video camera to measure the threshold of WV (TWV) and diaspore velocities (DV) of secondary diaspore dispersal. Diaspores of seven Calligonum species with different appendages (wings, bristles, membranous balloon, and wings + thorns) were used to determine the TWV and DV under variable wind speed (4, 6, 8, and 10 m s‐1) and four GSs (cement, sand, loam, and gravel). GS and diaspore morphological traits explained 37.1 and 18% of diaspore TWV, respectively. Meanwhile, WV, GS, and diaspore morphological traits explained 62.4, 13.6, and 3.2% of DV, respectively. An increasing trend was shown for TWV, and a decreasing trend was shown for DV in the order of cement, sand, loam, and gravel surfaces. Spherical and light diaspores had low TWV and high DV, whereas winged and heavy diaspores had high TWV and low DV. Our results indicated that adaptive features of diaspore appendages might be the result of selection for primary dispersal or secondary dispersal. The mechanism of diaspore secondary dispersal is important for understanding the recovery of degraded sand dunes and providing theoretical support for restoration practices

Effects of excluding grazing on the vegetation and soils of degraded sparse-elm grassland in the Horqin Sandy Land, China

Livestock grazing is a crucial cause of vegetation degradation and desertification in sandy lands. The sparse-elm grassland of Horqin Sandy Land, China has suffered severe degradation of biodiversity and ecosystem services. Management to exclude grazing is often necessary for ecological restoration, especially in arid and semi-arid regions. We report effects on vegetation and soils in a 10-year experiment to exclude livestock, completely or seasonally, in comparison with a continuously grazed area in Horqin. Complete exclusion of grazing and restriction of grazing to summer both led to significantly increased plant cover and density relative to the grazed control. Species richness increased, reflected in higher Shannon-Wiener indices; only complete exclusion increased the Simpson diversity index, whereas Pielou evenness was significantly lowest under seasonal grazing. Exclosure treatments were also associated with improved soil texture, and increased water retention, available nitrogen, total nitrogen, total carbon and total phosphorus. Soil pH and C/N ratio were highest under the seasonal grazing regime. The results indicated that exclosure management indeed improved biodiversity and ecosystem services in an erosion-prone region. Although total exclosure was most effective in restoration of degraded sparse-elm grassland, seasonal grazing management was highly beneficial and represented a good compromise with resource utilization and economic development

A sequence-based genetic linkage map as a reference for Brassica rapa pseudochromosome assembly

<p>Abstract</p> <p>Background</p> <p><it>Brassica rapa </it>is an economically important crop and a model plant for studies concerning polyploidization and the evolution of extreme morphology. The multinational <it>B. rapa </it>Genome Sequencing Project (BrGSP) was launched in 2003. In 2008, next generation sequencing technology was used to sequence the <it>B. rapa </it>genome. Several maps concerning <it>B. rapa </it>pseudochromosome assembly have been published but their coverage of the genome is incomplete, anchoring approximately 73.6% of the scaffolds on to chromosomes. Therefore, a new genetic map to aid pseudochromosome assembly is required.</p> <p>Results</p> <p>This study concerns the construction of a reference genetic linkage map for <it>Brassica rapa</it>, forming the backbone for anchoring sequence scaffolds of the <it>B. rapa </it>genome resulting from recent sequencing efforts. One hundred and nineteen doubled haploid (DH) lines derived from microspore cultures of an F1 cross between a Chinese cabbage (<it>B. rapa </it>ssp. <it>pekinensis</it>) DH line (Z16) and a rapid cycling inbred line (L144) were used to construct the linkage map. PCR-based insertion/deletion (InDel) markers were developed by re-sequencing the two parental lines. The map comprises a total of 507 markers including 415 InDels and 92 SSRs. Alignment and orientation using SSR markers in common with existing <it>B. rapa </it>linkage maps allowed ten linkage groups to be identified, designated A01-A10. The total length of the linkage map was 1234.2 cM, with an average distance of 2.43 cM between adjacent marker loci. The lengths of linkage groups ranged from 71.5 cM to 188.5 cM for A08 and A09, respectively. Using the developed linkage map, 152 scaffolds were anchored on to the chromosomes, encompassing more than 82.9% of the <it>B. rapa </it>genome. Taken together with the previously available linkage maps, 183 scaffolds were anchored on to the chromosomes and the total coverage of the genome was 88.9%.</p> <p>Conclusions</p> <p>The development of this linkage map is vital for the integration of genome sequences and genetic information, and provides a useful resource for the international <it>Brassica </it>research community.</p

Associating lncRNAs with small molecules via bilevel optimization reveals cancer-related lncRNAs.

Long noncoding RNA (lncRNA) transcripts have emerging impacts in cancer studies, which suggests their potential as novel therapeutic agents. However, the molecular mechanism behind their treatment effects is still unclear. Here, we designed a computational model to Associate LncRNAs with Anti-Cancer Drugs (ALACD) based on a bilevel optimization model, which optimized the gene signature overlap in the upper level and imputed the missing lncRNA-gene association in the lower level. ALACD predicts genes coexpressed with lncRNAs mean while matching drug's gene signatures. This model allows us to borrow the target gene information of small molecules to understand the mechanisms of action of lncRNAs and their roles in cancer. The ALACD model was systematically applied to the 10 cancer types in The Cancer Genome Atlas (TCGA) that had matched lncRNA and mRNA expression data. Cancer type-specific lncRNAs and associated drugs were identified. These lncRNAs show significantly different expression levels in cancer patients. Follow-up functional and molecular pathway analysis suggest the gene signatures bridging drugs and lncRNAs are closely related to cancer development. Importantly, patient survival information and evidence from the literature suggest that the lncRNAs and drug-lncRNA associations identified by the ALACD model can provide an alternative choice for cancer targeting treatment and potential cancer pognostic biomarkers. The ALACD model is freely available at https://github.com/wangyc82/ALACD-v1