京津冀城市群区域产业协同的政策格局及评价

产业协同发展是京津冀区域协同发展的三个重点领域之一,科学合理的产业协同政策是加快实现这一发展目标的重要保障。通过对京津冀城市群区域产业协同政策事件的系统梳理,从区域、省际和城际3个尺度解读了产业协同政策的格局及其演进过程,并从新区域主义的管治视角进行了评价。研究认为:(1)京津冀产业协同发展进入了快速发展的机遇期,协同政策极大地推动了区域内跨地产业合作和城市间产业联系,有助于提高城市群整体竞争力;(2)不同空间尺度的产业协同政策关注的重点、发展的方向、演化的特征不同,当前城市间的产业协同政策与区域协同发展目标的关系不明确,产业协同对生态环境的改善尚不显著,亟需加强研究和统筹协调;(3)受城市行政区等级关系和竞争关系的影响,京津冀产业协同政策与市场调节无法实现高度契合统一,与新区域主义的管治理念并不相符,影响科学合理协同政策的制定与实施。研究对当前京津冀区域产业协同发展推进及其政策制定有重要的参考意义。     

Distribution of ichthyoplankton in the eastern Peter the Great Bay,Sea of Japan,in June and July of 2007

Comparison of the results of ichthyoplankton surveys conducted at 97 stations in the eastern part of the Peter the Great Bay of the Sea of Japan, in June–July 2007 with the similar research data of the 1950s shows that at present, as was the case 50 years ago, flatfish eggs belonging mainly to the yellowfin sole Limanda aspera and brown sole Pleuronectes herzensteini prevail in the local ichthyoplankton (up to 86%). The highest concentrations of these species’ eggs were recorded in the Vostok Bay and Strelok Bay. The spawning activity of flatfish in 2007 is found to be lower than in the mid 1900s, but the significance of the eastern part of the Peter the Great Bay for flatfish reproduction remains large. The importance of long-term monitoring in this area, which is being subjected to steadily growing anthropogenic impacts, is also proven.     

Phylogenetic scale in ecology and evolution

Aim

Many important patterns and processes vary across the phylogeny and depend on phylogenetic scale. Nonetheless, phylogenetic scale has never been formally conceptualized, and its potential remains largely unexplored. Here, we formalize the concept of phylogenetic scale, review how phylogenetic scale has been considered across multiple fields and provide practical guidelines for the use of phylogenetic scale to address a range of biological questions.

Innovation

We summarize how phylogenetic scale has been treated in macroevolution, community ecology, biogeography and macroecology, illustrating how it can inform, and possibly resolve, some of the longstanding controversies in these fields. To promote the concept empirically, we define phylogenetic grain and extent, scale dependence, scaling and the domains of phylogenetic scale. We illustrate how existing phylogenetic data and statistical tools can be used to investigate the effects of scale on a variety of well‐known patterns and processes, including diversification rates, community structure, niche conservatism or species‐abundance distributions.

Main conclusions

Explicit consideration of phylogenetic scale can provide new and more complete insight into many longstanding questions across multiple fields (macroevolution, community ecology, biogeography and macroecology). Building on the existing resources and isolated efforts across fields, future research centred on phylogenetic scale might enrich our understanding of the processes that together, but over different scales, shape the diversity of life.     

Quantitative Metaproteomics and Activity-based Protein Profiling of Patient Fecal Microbiome Identifies Host and Microbial Serine-type Endopeptidase Activity Associated With Ulcerative Colitis

The gut microbiota plays an important yet incompletely understood role in the induction and propagation of ulcerative colitis (UC). Organism-level efforts to identify UC-associated microbes have revealed the importance of community structure, but less is known about the molecular effectors of disease. We performed 16S rRNA gene sequencing in parallel with label-free data-dependent LC-MS/MS proteomics to characterize the stool microbiomes of healthy (n = 8) and UC (n = 10) patients. Comparisons of taxonomic composition between techniques revealed major differences in community structure partially attributable to the additional detection of host, fungal, viral, and food peptides by metaproteomics. Differential expression analysis of metaproteomic data identified 176 significantly enriched protein groups between healthy and UC patients. Gene ontology analysis revealed several enriched functions with serine-type endopeptidase activity overrepresented in UC patients. Using a biotinylated fluorophosphonate probe and streptavidin-based enrichment, we show that serine endopeptidases are active in patient fecal samples and that additional putative serine hydrolases are detectable by this approach compared with unenriched profiling. Finally, as metaproteomic databases expand, they are expected to asymptotically approach completeness. Using ComPIL and de novo peptide sequencing, we estimate the size of the probable peptide space unidentified (“dark peptidome”) by our large database approach to establish a rough benchmark for database sufficiency. Despite high variability inherent in patient samples, our analysis yielded a catalog of differentially enriched proteins between healthy and UC fecal proteomes. This catalog provides a clinically relevant jumping-off point for further molecular-level studies aimed at identifying the microbial underpinnings of UC.     

Horizontal and vertical gradients in sediment nutrients on mudflats in the Shannon estuary,Ireland

Spatial variability in nutrient concentrations in the intertidal sediments and pore waters has been studied along downshore transects and in core profiles at three locations in the Shannon estuary on the west coast of Ireland. The parameters measured were N, as Kjeldahl N, NO₃, NO₂, and NH₃, and P as total P and PO₄ along with a range of other environmental variables such as salinity and sediment organic content. The concentrations of all nutrients varied with season, but winter values were generally low in comparison with polluted mainland european estuaries. There was a great deal of variation in nutrient concentrations along the transects, and coefficients of variability of up to 153% (NH₃), 173% (NO₃), 129% (NO₂) and 117% (PO₄) were found. Overall, there was little evidence of any trends in concentration in any of the nutrients from the top to the bottom of the transects, although it was occasionally possible to link particular instances to local conditions such as the presence of the channel or a stream. Sediment core profiles showed typical patterns, with NO₃ concentrations for example being highest in surface sediments, while NH₃ and PO₄ concentrations increased with depth. Rather surprisingly perhaps, NO₃ could still be detected on occasion at depths of up to 20 cm, well below the Redox Potential Discontinuity (RPD) and the limit of oxygen penetration which oxygen microelectrodes had measured as being within a few mm of the surface. This was ascribed to the activities of the macrofauna, in that the oxidised sediment which lined the burrows could clearly be seen in some cores. This study not only shows that nutrient distributions along estuarine gradients are linked to physicochemical factors such as oxygenation and freshwater/marine influence, but also that sediment instability, through random physical events such as storms, and macrofaunal activity play an important role and that these latter factors deserve closer attention.     

The influence of different spatial‐scale variables on caddisfly assemblages in Flemish lowland streams

1. Patterns in species assemblages are the result of the combined influence of processes acting on different spatial scales. Various studies describe the distribution of macroinvertebrate communities and their relationship with environmental factors at different geographical scales, but only a few of these studies concentrate on Western European lowlands. 2. Using Flanders as representative for the densely populated Western‐European lowlands, the specific aims of this study are: (i) to identify the different trichopteran species assemblages and to characterise them biologically using indicator species; (ii) to determine which environmental gradients most influence the observed species assemblages; and (iii) to analyse the relative importance of different spatial scale variables in constraining the Trichoptera distributions. 3. Assessment of the main environmental gradients suggested that the absence of Trichoptera from certain locations was mainly due to elevated nutrient concentrations and lower oxygen contents, confirming their sensitivity to anthropogenic disturbance. 4. Five Trichoptera species assemblages were distinguished based on Bray–Curtis dissimilarity coefficients. These assemblages did not differ significantly in species richness, but a shift in stream zonation preference was observed. In the ordination analysis 11 variables that were selected using a stepwise model building function manifested themselves as upstream–downstream and size‐related gradients. The Trichoptera assemblages in lowland streams thus appear to follow a longitudinal succession pattern that corresponds with the species‐specific preferences. 5. Partitioning the variance over the different spatial scales indicated that the reach‐scale variables were far more important in explaining the variation in species composition. The study design, which limited the minimum–maximum range of catchment‐scale characteristics, however, may have led to an overestimation of the impact of the local‐scale variables.     

Rangewide landscape genetics of an endemic Pacific northwestern salamander

A species' genetic structure often varies in response to ecological and landscape processes that differ throughout the species' geographic range, yet landscape genetics studies are rarely spatially replicated. The Cope's giant salamander (Dicamptodon copei) is a neotenic, dispersal‐limited amphibian with a restricted geographic range in the Pacific northwestern USA. We investigated which landscape factors affect D. copei gene flow in three regions spanning the species' range, which vary in climate, landcover and degree of anthropogenic disturbance. Least cost paths and Circuitscape resistance analyses revealed that gene flow patterns vary across the species' range, with unique combinations of landscape variables affecting gene flow in different regions. Populations in the northern coastal portions of the range had relatively high gene flow, largely facilitated by stream and river networks. Near the southeastern edge of the species' range, gene flow was more restricted overall, with relatively less facilitation by streams and more limitation by heat load index and fragmented forest cover. These results suggested that the landscape is more difficult for individuals to disperse through at the southeastern edge of the species' range, with terrestrial habitat desiccation factors becoming more limiting to gene flow. We suggest that caution be used when attempting to extrapolate landscape genetic models and conservation measures from one portion of a species' range to another.     

Site Variation in Spatial Aggregation and Phorophyte Preference in Psychilis monensis (Orchidaceae)

Aggregation patterns of plants vary according to spatial scale and developmental stage, and are dependent on vegetation dynamics and species composition. We describe the aggregation patterns of the epiphytic orchid Psychilis monensis from two sites with different vegetation structure and composition on Mona Island, Puerto Rico. We analyzed spatial variation for seedlings, juveniles, and adults using the density-independent, standardized Morisita index (I_MS). We censused a total of 879 plants. Strong preferences for some phorophyte species were evident, including dead trees, but association with bark roughness was equivocal. The highest densities occurred in the site with the lowest fruit and seed production, suggesting that the best sites for pollination and seedling establishment were not the same. Seedlings at one site were significantly aggregated, but all other stages were indistinguishable from a random distribution. Nevertheless, adults at both sites had the lowest I_MS values indicating that they tend to be the least aggregated of the three life history stages. The abundance and age structure of P. monensis were clearly affected by the frequency of their preferred hosts, but site-specific factors affecting seedling survival probably play a major role in site differences.