scholarly journals ecoTeka, Urban Forestry Data Management

2021 ◽  
Vol 5 ◽  
Author(s):  
Mathias Aloui ◽  
Gaëtan Duhamel ◽  
Manon Frédout ◽  
Olivier Rovellotti
Keyword(s):  
Learning Algorithm ◽  
Diversity Index ◽  
Urban Forestry ◽  
Open Data ◽  
Urban Ecosystems ◽  
Urban Ecosystem ◽  
Forestry Practices ◽  
Wiener Diversity Index ◽  
Open Standard ◽  
Tree Data

It is now well known that a healthy urban ecosystem is a crucial element to healthier citizens (Astell-Burt and Feng 2019), better air (Ning et al. 2016) and water quality (Livesley et al. 2016), and overall, to a more resilient urban environment (Huff et al. 2020). With ecoTeka, an open-source platform for tree management, we leverage the power of OpenStreetMap (Mooney 2015), Mappilary, and open data to allow decision makers to improve their urban forestry practices. To have the most comprehensive data about the ecosystems, we plan use all available sources from satellite imagery to LIDAR (light detection and ranging) and compute them with the DeepForest (Weinstein et al. 2020) learning algorithm. We also teamed with the French government to build an open standard for tree data to improve the interoperability of the system. Finally, we calculate a Shannon-Wiener diversity index (used by ecologists to estimate species diversity by their relative abundance in a habitat) to inform the decision making of urban ecosystems.

scholarly journals Effects of Plastic Debris on the Biofilm Bacterial Communities in Lake Water

Water ◽  
2021 ◽  
Vol 13 (11) ◽  
pp. 1465
Author(s):  
Chao Shen ◽  
Liuyan Huang ◽  
Guangwu Xie ◽  
Yulai Wang ◽  
Zongkai Ma ◽  
...  
Keyword(s):  
Community Structure ◽  
Bacterial Community ◽  
Bacterial Communities ◽  
Bacterial Community Structure ◽  
Diversity Index ◽  
Plastic Substrate ◽  
Simpson Index ◽  
Plastic Debris ◽  
Plastic Substrates ◽  
Wiener Diversity Index

Increasing discharge of plastic debris into aquatic ecosystems and the worsening ecological risks have received growing attention. Once released, plastic debris could serve as a new substrate for microbes in waters. The complex relationship between plastics and biofilms has aroused great interest. To confirm the hypothesis that the presence of plastic in water affects the composition of biofilm in natural state, in situ biofilm culture experiments were conducted in a lake for 40 days. The diversity of biofilm attached on natural (cobble stones (CS) and wood) and plastic substrates (Polyethylene terephthalate (PET) and Polymethyl methacrylate (PMMA)) were compared, and the community structure and composition were also analyzed. Results from high-throughput sequencing of 16S rRNA showed that the diversity and species richness of biofilm bacterial communities on natural substrate (observed species of 1353~1945, Simpson index of 0.977~0.989 and Shannon–Wiener diversity index of 7.42~8.60) were much higher than those on plastic substrates (observed species of 900~1146, Simpson index of 0.914~0.975 and Shannon–Wiener diversity index of 5.47~6.99). The NMDS analyses were used to confirm the taxonomic significance between different samples, and Anosim (p = 0.001, R = 0.892) and Adonis (p = 0.001, R = 808, F = 11.19) demonstrated that this classification was statistically rigorous. Different dominant bacterial communities were found on plastic and natural substrates. Alphaproteobacterial, Betaproteobacteria and Synechococcophycideae dominated on the plastic substrate, while Gammaproteobacteria, Phycisphaerae and Planctomycetia played the main role on the natural substrates. The bacterial community structure of the two substrates also showed significant difference which is consistent with previous studies using other polymer types. Our results shed light on the fact that plastic debris can serve as a new habitat for biofilm colonization, unlike natural substrates, pathogens and plastic-degrading microorganisms selectively attached to plastic substrates, which affected the bacterial community structure and composition in aquatic environment. This study provided a new insight into understanding the potential impacts of plastics serving as a new habitat for microbial communities in freshwater environments. Future research should focus on the potential impacts of plastic-attached biofilms in various aquatic environments and the whole life cycle of plastics (i.e., from plastic fragments to microplastics) and also microbial flock characteristics using microbial plastics in the natural environment should also be addressed.

scholarly journals Effects of Ecological Restoration Using Non-Native Mangrove Kandelia obovata to Replace Invasive Spartina alterniflora on Intertidal Macrobenthos Community in Maoyan Island (Zhejiang, China)

2021 ◽  
Vol 9 (8) ◽  
pp. 788
Author(s):  
Qiuxuan Wang ◽  
Carlos Duarte ◽  
Li Song ◽  
George Christakos ◽  
Susana Agusti ◽  
...  
Keyword(s):  
Community Structure ◽  
Ecological Restoration ◽  
Spartina Alterniflora ◽  
Diversity Index ◽  
Invasion History ◽  
Kandelia Obovata ◽  
Wiener Diversity Index ◽  
Significant Difference ◽  
Spatial Differences ◽  
Average Biomass

Spartina alterniflora has extensively invaded the coastline of China, including in Maoyan Island of Zhejiang Province. Ecological restoration has been conducted using non-native mangrove Kandelia obovata to replace S. alterniflora in an attempt to restore the impacted intertidal zones. To illustrate the ecological effectiveness of the restoration projects, macrobenthos communities were studied among different habitats within the restored areas, including one non-restored S. alterniflora marsh (SA) and three differently-aged restored K. obovata stands planted in 2003, 2009, and 2011 respectively (KF14, KF8, and KF6). Besides, one unvegetated mudflat (MF) adjacent to the non-restored S. alterniflora marsh and one K. obovata forest transplanted in 2006 (RKF) at a previously barren mudflat without invasion history of S. alterniflora were set as reference sites. A total of 69 species of macrobenthos were collected from Maoyan Island, and the species richness was dominated by gastropoda (23 species), polychaeta (18 species), and malacostraca (16 species). There was no significant difference between the six sites in terms of the abundance of macrobenthos, with the average values of abundance peaking in KF6 (734.7 ind m−2) and being lowest in RKF (341.3 ind m−2). The six sites had significant differences in terms of the biomass of macrobenthos. The KF8 site contained the highest average biomass (168.3 g m−2), whereas the MF site had the lowest (54.3 g m−2). The Shannon-Wiener diversity index and Pielou’s evenness index of the macrobenthos did not exhibit significant differences among the six sites. However, the results of permutational multivariate analysis of variance (PERMANOVA) revealed significant spatial differences in the macrobenthos community structure between the sites. Since KF14 shared a similar macrobenthos community structure with RKF, while representing a strikingly different structure from SA, we infer that ecological restoration using K. obovata can restore the macrobenthos community to resemble to a normally planted K. obovata forest about 15 years after restoration.

scholarly journals Effects of a 5-year trawling ban on the local benthic community in a wind farm in the Dutch coastal zone

2014 ◽  
Vol 72 (3) ◽  
pp. 962-972 ◽  
Author(s):  
Magda J. N. Bergman ◽  
Selma M. Ubels ◽  
Gerard C. A. Duineveld ◽  
Erik W. G. Meesters
Keyword(s):  
Coastal Zone ◽  
Benthic Community ◽  
Large Scale ◽  
Wind Farm ◽  
Diversity Index ◽  
Benthic Assemblages ◽  
The North ◽  
Wiener Diversity Index ◽  
Short Period ◽  
Reference Areas

Abstract As part of a large impact study in a wind farm (OWEZ) in the Dutch coastal zone, the effects of exclusion of bottom trawling on the benthic community were studied by comparison with nearby reference areas which were regularly fished. In addition to a standard boxcorer for common macrofauna, a Triple-D dredge was used to collect longer-lived, more sparsely distributed infauna and epifauna. Multivariate analysis did not reveal any difference between the assemblages in and outside OWEZ with respect to abundance, biomass, and production after a 5-year closure. The Shannon–Wiener diversity index pointed to a significantly higher diversity in OWEZ compared with some of the reference areas. A minority of the bivalve species assumed to be sensitive to trawling showed higher abundances (Spisula solida) or larger sizes (Tellina fabula, Ensis directus) in OWEZ than in some of the reference areas. In general, samples collected with the Triple-D showed more differences between areas than boxcore samples. No evidence was also found that the species composition in OWEZ relative to the reference areas had changed in the period between 1 (2007) and 5 (2011) years after closure. The change observed in all areas between 2007 and 2011 was mainly due to relatively small variations in species abundances. In conclusion, 5 years after the closure of OWEZ to fisheries, only subtle changes were measured in the local benthic community, i.e. a higher species diversity and an increased abundance and lengths of some bivalves. Depleted adult stocks, faunal patchiness, and a limited time for recovery (5 years) might explain that a significant recovery could not be found. The current study shows that designation of large-scale marine protected areas as planned for the North Sea will not automatically imply that restoration of benthic assemblages can be expected within a relatively short period of years.

scholarly journals Sampling a biodiversity hotspot: the orchid-bee fauna (Hymenoptera: Apidae) of Tarapoto, northeastern Peru, the richest and most diverse site of the Neotropics

2014 ◽  
Vol 74 (3 suppl 1) ◽  
pp. s33-s44 ◽  
Author(s):  
A Nemésio ◽  
C Rasmussen
Keyword(s):  
Diversity Index ◽  
Species Group ◽  
Biodiversity Hotspot ◽  
Single Site ◽  
Additional Species ◽  
Orchid Bees ◽  
Orchid Bee ◽  
Wiener Diversity Index ◽  
First Time

The orchid-bee fauna of the region of Tarapoto, northeastern Peru, was surveyed using seventeen different scents as baits to attract orchid-bee males. Six hundred and fifty-nine males belonging to 41 species were actively collected with insect nets during 120 hours in late July and early August, 2012. Euglossa dressleriMoure, 1968, Euglossa laurensiBembé, 2008, and Euglossa maculilabrisMoure, 1968, three species belonging to the Euglossa cybelia species-group, are here reported for Peru for the first time. Previous sporadic and unpublished samplings in the area recorded eleven additional species. With 53 species, the region of Tarapoto can be considered the richest single site in the Neotropics for orchid bees. Diversity, estimated with the Shannon-Wiener diversity index (H′ = 3.02), was also the highest ever recorded for orchid bees.

scholarly journals Distance Effects on Diversity and Abundance of the Flower Visitors of Ocimum kilimandscharicum in the Kakamega Forest Ecosystem

2018 ◽  
Vol 2018 ◽  
pp. 1-7 ◽  
Author(s):  
Hellen K. Mandela ◽  
Mugatsia H. Tsingalia ◽  
Mary Gikungu ◽  
Wilbur M. Lwande
Keyword(s):  
Species Diversity ◽  
Diversity Index ◽  
Land Use Changes ◽  
Species Abundance ◽  
Diversity Indices ◽  
Forest Edge ◽  
Flower Visitors ◽  
Kakamega Forest ◽  
Species Invasions ◽  
Wiener Diversity Index

Pollination is an important ecosystem service in the maintenance of biodiversity and most importantly in food production. Pollination is on the decline due to habitat loss, exotic species invasions, pollution, overharvesting, and land use changes. This study analyzed the abundance and diversity of flower visitors’ of Ocimum kilimandscharicum in Kakamega forest with increasing distance from the forest edge. Data were collected through direct observation and sweep netting. Six study sites were identified along two transects each 2.5 km long and labeled A to F. Distance in metres from the forest edge to each site was A=221, B=72, C=83, D=198, E=113, and F=50. Sampling was done from 7:30 am to 4:00 pm, three days in a week for five months consecutively. Diversity indices of different flower visitors were calculated using the Shannon-Wiener diversity index. One-way analysis of variance was used to compare differences between sites and a two-sample t-test was used to identify mean significant differences in species diversity between the closest and the furthest sites. A total of 645 individuals belonging to 35 species were captured from 4 families. The highest diversity was at site F (H’= 2.38) which was closest to the forest edge and the lowest diversity was from site A (H’=1.44) which was furthest from the forest edge. Distance from the forest edge significantly influenced species diversity (F(3, 20)=14.67, p=0.024). Distance from the forest edge also significantly influenced species abundance between the furthest sites A, D, and E and the nearest sites F, B, and C to the forest edge (t=4.177; p=0.0312) and species richness (t=3.2893; p=0.0187). This study clearly demonstrates that Ocimum kilimandscharicum flower visitors play essential roles in pollination and their higher number of visits translates into higher numbers of seeds set. Many of these pollinators are associated with the forest and hence the need to conserve the Kakamega forest as a source pool for pollinators.

scholarly journals Next Generation Sequencing-Based Molecular Marker Development: A Case Study in Betula Alnoides

Molecules ◽  
2018 ◽  
Vol 23 (11) ◽  
pp. 2963 ◽  
Author(s):  
Jing Tan ◽  
Jun-Jie Guo ◽  
Ming-Yu Yin ◽  
Huan Wang ◽  
Wen-Pan Dong ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Molecular Marker ◽  
Ssr Markers ◽  
Southern China ◽  
Diversity Index ◽  
Next Generation ◽  
Wiener Diversity Index ◽  
Nucleotide Repeats ◽  
Betula Alnoides ◽  
Generation Sequencing

Betula alnoides is a fast-growing valuable indigenous tree species with multiple uses in the tropical and warm subtropical regions in South-East Asia and southern China. It has been proved to be tetraploid in most parts of its distribution in China. In the present study, next generation sequencing (NGS) technology was applied to develop numerous SSR markers for B. alnoides, and 64,376 contig sequences of 106,452 clean reads containing 164,357 candidate SSR loci were obtained. Among the derived SSR repeats, mono-nucleotide was the main type (77.05%), followed by di- (10.18%), tetra- (6.12%), tri- (3.56%), penta- (2.14%) and hexa-nucleotide (0.95%). The short nucleotide sequence repeats accounted for 90.79%. Among the 291 repeat motifs, AG/CT (46.33%) and AT/AT (44.15%) were the most common di-nucleotide repeats, while AAT/ATT (48.98%) was the most common tri-nucleotide repeats. A total of 2549 primer sets were designed from the identified putative SSR regions of which 900 were randomly selected for evaluation of amplification successfulness and detection of polymorphism if amplified successfully. Three hundred and ten polymorphic markers were obtained through testing with 24 individuals from B. alnoides natural forest in Jingxi County, Guangxi, China. The number of alleles (NA) of each marker ranged from 2 to 19 with a mean of 5.14. The observed (HO) and expected (HE) heterozygosities varied from 0.04 to 1.00 and 0.04 to 0.92 with their means being 0.64 and 0.57, respectively. Shannon-Wiener diversity index (I) ranged from 0.10 to 2.68 with a mean of 1.12. Cross-species transferability was further examined for 96 pairs of SSR primers randomly selected, and it was found that 48.96–84.38% of the primer pairs could successfully amplify each of six related Betula species. The obtained SSR markers can be used to study population genetics and molecular marker assisted breeding, particularly genome-wide association study of these species in the future.

scholarly journals Factors affecting the species richness and composition of bird species in a community managed forest of Nepal

2021 ◽  
Vol 13 (9) ◽  
pp. 19212-19222
Author(s):  
Bishow Poudel ◽  
Bijaya Neupane ◽  
Rajeev Joshi ◽  
Thakur Silwal ◽  
Nirjala Raut ◽  
...  
Keyword(s):  
Diversity Index ◽  
Bird Species ◽  
Habitat Characteristics ◽  
Lower Percentage ◽  
Bird Diversity ◽  
Limited Information ◽  
Managed Forest ◽  
Point Count ◽  
Community Forests ◽  
Wiener Diversity Index

There exists limited information on biodiversity including avifaunal diversity and habitat condition in community forests (CF) of Nepal; thus we aimed to fulfill such gaps in Tibrekot CF of Kaski district. We used the point count method for assessing bird diversity and laid out a circular plot size of radius 5-m within 15-m distance from each point count station for recording the biophysical habitat characteristics. Bird species’ diversity, richness and evenness were calculated using popular indexes and General Linear Model (GLM) was used to test the respective effect of various biophysical factors associated with the richness of bird species. In total, 166 (summer 122, winter 125) bird species were recorded in 46 sample plots. The Shannon-Wiener diversity index was calculated as 3.99 and 4.09, Margalef’s richness index as 16.84 and 17.53 and Pielou’s evenness index as 0.83 and 0.84 for summer and winter, respectively. The influencing factors for richness of bird species were season (χ21, 90= 112.21; P= 0.016) with higher richness in the summer season and low vegetation cover (χ21, 89= 113.88; P= 0.0064) with higher richness in lower percentage cover. Thus, community managed forest should be protected as it has a significant role in increasing bird diversity, which has potential for attracting avifaunal tourism for the benefit of the local communities.

scholarly journals Initial terrestrial vertebrate diversity assessment in upland Cavite, Philippines

2019 ◽  
Vol 12 (2) ◽  
Keyword(s):  
Diversity Index ◽  
Conservation Status ◽  
Wildlife Habitat ◽  
Direct Result ◽  
Forest Fragments ◽  
Terrestrial Vertebrates ◽  
Terrestrial Vertebrate ◽  
Wiener Diversity Index ◽  
Diversity Assessment ◽  
Animal Diversity

Cavite’s remaining upland forest fragments are either remnant from commercial logging activities ca. 25-45 years ago or as a direct result of land conversions for agriculture or human settlements. These forest fragments are very significant because they represent areas where pockets of wildlife habitat still remain. The terrestrial vertebrates are often used to assess animal diversity because they are ideal biological indicators of environmental change and anthropogenic disturbances. The study aimed to determine terrestrial vertebrate diversity, conservation status, and identify major anthropogenic threats in these fragments. Terrestrial vertebrates were surveyed using a combination of strip-transect sampling, time-constrained searches, visual encounter survey (VES), and acoustic encounter survey (AES; for amphibians only), point counts, live trapping and mist netting from October 2014 to March 2016. Species richness and biodiversity estimation were computed using Shannon-Wiener Diversity Index, linear regression, detection and probability modeling using PAST, and confidence limits for nestedness (0.05α) using EpiTools. A total of 175 terrestrial vertebrates were documented and among the vertebrate groups, the birds had the highest observed diversity. Twenty-nine (19 birds, 3 mammals, 3 lizards, and 4 anurans) species are listed as threatened. Habitat loss and degradation due to the conversion of habitats to agricultural and/or residential areas remained to be the most prevalent threat in the remaining forested areas in upland Cavite. Baseline data generated shall be used in the different government biodiversity monitoring activities as the basis for impacts and mitigation and initial planning for the management and conservation of these remaining forest patches.

scholarly journals Birds species composition and abundance of a relativelly undisturbed vegetation at Mount Pati, Lokoja, Kogi State

2019 ◽  
Vol 6 (12) ◽  
pp. 271-282
Author(s):  
Dauda Tanko ◽  
Rita Chinweuba
Keyword(s):  
State Government ◽  
Diversity Index ◽  
Anthropogenic Activities ◽  
Bird Species ◽  
Activity Level ◽  
Line Transect ◽  
Biological Factors ◽  
Wet Season ◽  
Fuel Wood ◽  
Wiener Diversity Index

Avifauna of a relatively undisturbed vegetation at Mount Patti of Lokoja was surveyed from January to June, 2018. Line transect and point count techniques were used for data collection. This was done by weekly visits to the site between 6:00 h and 10:00 h of the day. Bird identification was done with the aid of a pair of binoculars, Field Guide of birds of western Africa and recorded bird calls. Monthly variation and season variation in bird composition and abundance were compared using Shannon-Wiener diversity index and equitability index. There were 39 species in 21 families encountered during the survey. The Family Nectarinidae had the highest number of 5 species, followed by Columbidae and Estrildidae with 4 species each. A total of 1,148 individuals were encountered during the six months survey with village weaver having the highest encountered rate of 107 while yellow-throated Long-claw had the least encountered rate of 4 individuals. Fluctuation was observed in the monthly encountered rate of the birds. Diversity and equitability indices had their highest values of 5.24 and 1.51 in January. More birds (696) were encountered in the wet season than the dry season (452). Four species were seen only in the wet season. Species effort curve showed that there are more species to be discover. The number of species encountered in this study revealed that the mountain is rich composition of bird species, even though the site seems to favour species that show preference to disturbed areas. The on-going anthropogenic activities probably paved way to these species to move in. Monthly and seasonal fluctuation of bird species diversity and abundance may be due to a combination of physical and biological factors. The physical and biological factors observed at the site which we speculate could be reasons for the observed fluctuations include slash and burnt system of farming, fuel-wood harvesting, intensive sporting activities creation of foot paths etc. High encountered rate indicate abundance and high activity level of the species. The village weaver was the most encountered species probably because they are known to be lousy, move in flocks and breed in colonies. In view of the rich composition and abundance of bird species on Mount Patti and the site being a suitable breeding site for the weavers. We recommend further study of the place as there are yet more species to be discovered as indicated by the species effort curve. There is need for conservation procedures to be initiated at the place and this study should serve as a baseline to initiate such programme by the state government.

scholarly journals Community Structure of Dragonfly (Ordo: Odonata) in Natural Forest and Tourist Sites Petungkriyono Forest, Central Java, Indonesia

2021 ◽  
Vol 6 (3) ◽  
pp. 67328
Author(s):  
Nur Apriatun Nafisah ◽  
R.C.Hidayat Soesilohadi
Keyword(s):  
Community Structure ◽  
Tropical Rainforest ◽  
Diversity Index ◽  
Natural Forest ◽  
Natural Forests ◽  
Community Based ◽  
Central Java ◽  
Wiener Diversity Index ◽  
Index Value ◽  
Total Species

Petungkriyono forest is a tropical rainforest with high biodiversity. The increasing tourism activities in Petungkriyono lead to land conversion. Dragonfly (order Odonata) is a good bioindicator for aquatic and terrestrial. This study aimed to compare the community structure of Odonata in natural forests and tourist sites. The method of collecting imago Odonata was done by direct searching, samples were captured using sweep netting. The results showed that the dragonflies found in all locations consisted of the same family, 2 families (Gomphidae and Libellulidae) from the suborder Anisoptera and 6 families (Calopterygidae, Chlorocyphidae, Coenagrionidae, Euphaidae Platycnemididae, and Platystictidae) from the suborder Zygoptera. The total species of dragonflies found in Sokokembang were 15 species with a total of 293 individuals, Tirta Muncar 13 species of 287 individuals, Karanggondang 17 species of 276 individuals, and Curug Lawe 14 species of 242 individuals. The highest relative abundance of individuals was in the natural forest of Sokokembang is Drepanosticta spatulifera (26.28%) and in Karanggondang Vestalis luctuosa (24.64%), while in the tourist forests of Tirta Muncar and Curug Lawe were Euphaea variegata (34.84% and 28.51 %). The structure of the Odonata community is based on the Shannon-Wiener diversity index in the natural forests of Sokokembang (2.18) and Karanggondang (2.21) at the tourist sites of Tirta Muncar (1.84) and Curug Lawe (2.11). The results showed that the structure of the Odonata community based on the level of the diversity index value, evenness index, and dominance index in natural forests and tourist sites in Petungkriyono forest was not significantly different. 

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