28 Works

Additional file 2 of MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes

Muhammad Kabiru Nata’ala, Anderson P. Avila Santos, Jonas Coelho Kasmanas, Alexander Bartholomäus, João Pedro Saraiva, Sandra Godinho Silva, Tina Keller-Costa, Rodrigo Costa, Newton C. M. Gomes, André Carlos Ponce de Leon Ferreira de Carvalho, Peter F. Stadler, Danilo Sipoli Sanches & Ulisses Nunes da Rocha
Additional file 2. Table S2: Some samples with the extracted columns and their labels.

Additional file 6 of MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes

Muhammad Kabiru Nata’ala, Anderson P. Avila Santos, Jonas Coelho Kasmanas, Alexander Bartholomäus, João Pedro Saraiva, Sandra Godinho Silva, Tina Keller-Costa, Rodrigo Costa, Newton C. M. Gomes, André Carlos Ponce de Leon Ferreira de Carvalho, Peter F. Stadler, Danilo Sipoli Sanches & Ulisses Nunes da Rocha
Additional file 6. Table S6: Equivalent and comparable attributes in SRA and MG-RAST.

Additional file 7 of MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes

Muhammad Kabiru Nata’ala, Anderson P. Avila Santos, Jonas Coelho Kasmanas, Alexander Bartholomäus, João Pedro Saraiva, Sandra Godinho Silva, Tina Keller-Costa, Rodrigo Costa, Newton C. M. Gomes, André Carlos Ponce de Leon Ferreira de Carvalho, Peter F. Stadler, Danilo Sipoli Sanches & Ulisses Nunes da Rocha
Additional file 7. Table S7: Packages and their versions used for the WebApp.

Additional file 1 of MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes

Muhammad Kabiru Nata’ala, Anderson P. Avila Santos, Jonas Coelho Kasmanas, Alexander Bartholomäus, João Pedro Saraiva, Sandra Godinho Silva, Tina Keller-Costa, Rodrigo Costa, Newton C. M. Gomes, André Carlos Ponce de Leon Ferreira de Carvalho, Peter F. Stadler, Danilo Sipoli Sanches & Ulisses Nunes da Rocha
Additional file 1. Table S1: Dictionary of terms used for filtering out non-marine samples.

Spatiotemporal niche-based mechanisms support a stable coexistence of ants and spiders in an extrafloral nectary-bearing plant community

Denise Lange, Eduardo Calixto, Kleber Del-Claro & Vanessa Stefani
Mechanisms promoting stable coexistence allow multiple species to persist in the same trophic level of a given network of species interactions. One of the most common stabilizing mechanisms of coexistence is niche differentiation, such as temporal and spatial patchiness. To understand the limits of coexistence between species we have to understand the limits of competitive interactions which translate in species exclusion or patterns of non-co-occurrence. We evaluated spatiotemporal niche-based mechanisms that could promote stable coexistence...

Net benefits of a mutualism: influence of the quality of extrafloral nectar on the colony fitness of a mutualistic ant

Eduardo Calixto, Denise Lange & Kleber Del-Claro
Aim: Extrafloral nectar, a carbohydrate-rich liquid, is the main plant-based resource offered in exchange for ant protection. The positive results of this protection provided by ants are widely studied and supported; however, studies showing the benefits that ants and their colonies have from the resources offered by plants such as extrafloral nectar are scarce. Here, we evaluated how extrafloral nectar and artificial food resources with different nutrient concentration benefit short- and long-term Camponotus crassus colony...

Perspectivas dilatadas e olhares astronômicos: o uso de imagens de satélites no trabalho de Mishka Henner

Kati Caetano & Anuschka Lemos

Lourenço Marques em O olho de Hertzog e As mulheres do imperador

Ricardo Luiz Pedrosa Alves & Ana Beatriz Matte Braun
“Omnipresente” (Noa, 184) na fase cosmopolita do romance colonial, a cidade de Lourenço Marques aparece pouquíssimo nos romances moçambicanos contemporâneos. Mesmo o cenário da cidade pós-independência, como Maputo, é pouco explorado pelos romancistas (Can, 58). O Olho de Hertzog (2010), de João Paulo Borges Coelho, e As mulheres do Imperador (2018), de Ungulani Ba Ka Khosa, são exceções: ambientadas na Lourenço Marques do início do século vinte, as obras praticamente coincidem cronologicamente na abordagem da...

Additional file 4 of MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes

Muhammad Kabiru Nata’ala, Anderson P. Avila Santos, Jonas Coelho Kasmanas, Alexander Bartholomäus, João Pedro Saraiva, Sandra Godinho Silva, Tina Keller-Costa, Rodrigo Costa, Newton C. M. Gomes, André Carlos Ponce de Leon Ferreira de Carvalho, Peter F. Stadler, Danilo Sipoli Sanches & Ulisses Nunes da Rocha
Additional file 4. Table S4: Marine ‘MarMDB’ attributes groups and their respective values.

Optimal Defense Theory in an ant‐plant mutualism: extrafloral nectar as an induced defense is maximized in the most valuable plant structures

Eduardo Calixto, Denise Lange, Judith Bronstein, Helena Torezan-Silingardi & Kleber Del-Claro
Optimal Defense Theory (ODT) predicts that to maximize the benefits of defense against herbivores while minimizing its costs, plants will invest in defenses to structures according to their value and to the likelihood that they will be attacked. Constitutive defenses are expected in structures of high value, whereas induced defenses are expected in structures of low value. Regarding the biotic defense mediated by extrafloral nectaries (EFNs) and based on ODT, we predicted that under control...

Climate seasonality drives ant-plant-herbivore interactions via plant phenology in an extrafloral nectary-bearing plant community

Eduardo Calixto, Letícia Novaes, Danilo Santos, Denise Lange, Xoaquín Moreira & Kleber Del-Claro
Interactions between ants and plants bearing extrafloral nectaries (EFNs) are among the most common mutualisms in Neotropical regions. Plants secrete extrafloral nectar, a carbohydrate-rich food that attracts ants, which in return protect plants against herbivores. This ant-plant mutualism is subjected to temporal variation, in which abiotic factors can drive the establishment and frequency of such mutualistic interaction. However, studies investigating how abiotic factors (e.g., climate) directly and indirectly influence ant-plant-herbivore interactions are incipient. In this...

Additional file 1 of MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes

Muhammad Kabiru Nata’ala, Anderson P. Avila Santos, Jonas Coelho Kasmanas, Alexander Bartholomäus, João Pedro Saraiva, Sandra Godinho Silva, Tina Keller-Costa, Rodrigo Costa, Newton C. M. Gomes, André Carlos Ponce de Leon Ferreira de Carvalho, Peter F. Stadler, Danilo Sipoli Sanches & Ulisses Nunes da Rocha
Additional file 1. Table S1: Dictionary of terms used for filtering out non-marine samples.

MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes

Muhammad Kabiru Nata’ala, Anderson P. Avila Santos, Jonas Coelho Kasmanas, Alexander Bartholomäus, João Pedro Saraiva, Sandra Godinho Silva, Tina Keller-Costa, Rodrigo Costa, Newton C. M. Gomes, André Carlos Ponce de Leon Ferreira de Carvalho, Peter F. Stadler, Danilo Sipoli Sanches & Ulisses Nunes da Rocha
Abstract Background Metagenomics is an expanding field within microbial ecology, microbiology, and related disciplines. The number of metagenomes deposited in major public repositories such as Sequence Read Archive (SRA) and Metagenomic Rapid Annotations using Subsystems Technology (MG-RAST) is rising exponentially. However, data mining and interpretation can be challenging due to mis-annotated and misleading metadata entries. In this study, we describe the Marine Metagenome Metadata Database (MarineMetagenomeDB) to help researchers identify marine metagenomes of interest for...

Additional file 2 of MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes

Muhammad Kabiru Nata’ala, Anderson P. Avila Santos, Jonas Coelho Kasmanas, Alexander Bartholomäus, João Pedro Saraiva, Sandra Godinho Silva, Tina Keller-Costa, Rodrigo Costa, Newton C. M. Gomes, André Carlos Ponce de Leon Ferreira de Carvalho, Peter F. Stadler, Danilo Sipoli Sanches & Ulisses Nunes da Rocha
Additional file 2. Table S2: Some samples with the extracted columns and their labels.

Supplemental data for: Classification of the Celastrales based on integration of genomic, morphological, and Sanger-sequence characters

Mark Simmons, Julio Lombardi & Leonardo Biral
We present the best sampled phylogenetic analysis of Celastrales, with respect to both character and taxon sampling, and use it to present a natural classification of the order. Parnassiaceae are highly supported as sister to Celastraceae; we recognize both families as distinct. Pottingeria is highly supported as a member of an early derived lineage within Celastraceae. We recognize and circumscribe 13 subfamilies in Celastraceae, including the new subfamilies Crossopetaloideae, Maytenoideae, Microtropioideae, Monimopetaloideae, and Salaciopsioideae. We...

Plant species-specificity of ant-plant mutualistic interactions: Differential predation of termites by Camponotus crassus on five species of extrafloral nectaried plants

Eduardo Calixto, Denise Lange, Xoaquín Moreira & Kleber Del-Claro
There is increasing evidence that the outcomes of mutualistic interactions between ants and plants bearing extrafloral nectaries (EFNs) is context-dependent. In particular, the total number, density and size of EFNs, as well as the abundance and identity of ants attending host plants, are considered as key factors determining the nature and strength of ant-EFN-bearing plant interaction. Although many previous studies have investigated context-dependency in ant–plant protection mutualisms mediated by EFNs, few have tested whether the...

Additional file 8 of MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes

Muhammad Kabiru Nata’ala, Anderson P. Avila Santos, Jonas Coelho Kasmanas, Alexander Bartholomäus, João Pedro Saraiva, Sandra Godinho Silva, Tina Keller-Costa, Rodrigo Costa, Newton C. M. Gomes, André Carlos Ponce de Leon Ferreira de Carvalho, Peter F. Stadler, Danilo Sipoli Sanches & Ulisses Nunes da Rocha
Additional file 8. Fig. S1: Graphic of the percentage of missing values for each attribute of MarineMetagenomeDB by source database.

MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes

Muhammad Kabiru Nata’ala, Anderson P. Avila Santos, Jonas Coelho Kasmanas, Alexander Bartholomäus, João Pedro Saraiva, Sandra Godinho Silva, Tina Keller-Costa, Rodrigo Costa, Newton C. M. Gomes, André Carlos Ponce de Leon Ferreira de Carvalho, Peter F. Stadler, Danilo Sipoli Sanches & Ulisses Nunes da Rocha
Abstract Background Metagenomics is an expanding field within microbial ecology, microbiology, and related disciplines. The number of metagenomes deposited in major public repositories such as Sequence Read Archive (SRA) and Metagenomic Rapid Annotations using Subsystems Technology (MG-RAST) is rising exponentially. However, data mining and interpretation can be challenging due to mis-annotated and misleading metadata entries. In this study, we describe the Marine Metagenome Metadata Database (MarineMetagenomeDB) to help researchers identify marine metagenomes of interest for...

Additional file 3 of MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes

Muhammad Kabiru Nata’ala, Anderson P. Avila Santos, Jonas Coelho Kasmanas, Alexander Bartholomäus, João Pedro Saraiva, Sandra Godinho Silva, Tina Keller-Costa, Rodrigo Costa, Newton C. M. Gomes, André Carlos Ponce de Leon Ferreira de Carvalho, Peter F. Stadler, Danilo Sipoli Sanches & Ulisses Nunes da Rocha
Additional file 3. Table S3: Attributes chosen to represent different synonyms from SRAdb’s ‘sample_attribute’.

Additional file 4 of MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes

Muhammad Kabiru Nata’ala, Anderson P. Avila Santos, Jonas Coelho Kasmanas, Alexander Bartholomäus, João Pedro Saraiva, Sandra Godinho Silva, Tina Keller-Costa, Rodrigo Costa, Newton C. M. Gomes, André Carlos Ponce de Leon Ferreira de Carvalho, Peter F. Stadler, Danilo Sipoli Sanches & Ulisses Nunes da Rocha
Additional file 4. Table S4: Marine ‘MarMDB’ attributes groups and their respective values.

Additional file 7 of MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes

Muhammad Kabiru Nata’ala, Anderson P. Avila Santos, Jonas Coelho Kasmanas, Alexander Bartholomäus, João Pedro Saraiva, Sandra Godinho Silva, Tina Keller-Costa, Rodrigo Costa, Newton C. M. Gomes, André Carlos Ponce de Leon Ferreira de Carvalho, Peter F. Stadler, Danilo Sipoli Sanches & Ulisses Nunes da Rocha
Additional file 7. Table S7: Packages and their versions used for the WebApp.

Evolutionary history of Neotropical savannas geographically concentrates species, phylogenetic and functional diversity of lizards

Jessica Fenker, Fabricius M. C. B. Domingos, Leonardo G. Tedeschi, Dan F. Rosauer, Fernanda P. Werneck, Guarino R. Colli, Roger M. D. Ledo, Emanuel M. Fonseca, Adrian A. Garda, Derek Tucker, , Maria F. Breitman, Flavia Soares, Lilian G. Giugliano & Craig Moritz
Supporting information (scripts) to compute diversity and endemism indices copied and available by Dan Rosauer (https ://github.com/DanRosauer/phylospatial). Aim: Understanding where and why species diversity is geographically concentrated remains a challenge in biogeography and macroevolution. This is true for the Cerrado, the most biodiverse tropical savanna in the world, which has experienced profound biodiversity loss. Previous studies have focused on a single metric (species composition), neglecting the fact that ‘species’ within the biome are often composed...

Estratégias promocionais e atendimento ao consumidor nas redes sociais digitais: o caso do Ponto Frio no Twitter

Edna Miola & Francisco Marques

Additional file 3 of MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes

Muhammad Kabiru Nata’ala, Anderson P. Avila Santos, Jonas Coelho Kasmanas, Alexander Bartholomäus, João Pedro Saraiva, Sandra Godinho Silva, Tina Keller-Costa, Rodrigo Costa, Newton C. M. Gomes, André Carlos Ponce de Leon Ferreira de Carvalho, Peter F. Stadler, Danilo Sipoli Sanches & Ulisses Nunes da Rocha
Additional file 3. Table S3: Attributes chosen to represent different synonyms from SRAdb’s ‘sample_attribute’.

Additional file 5 of MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes

Muhammad Kabiru Nata’ala, Anderson P. Avila Santos, Jonas Coelho Kasmanas, Alexander Bartholomäus, João Pedro Saraiva, Sandra Godinho Silva, Tina Keller-Costa, Rodrigo Costa, Newton C. M. Gomes, André Carlos Ponce de Leon Ferreira de Carvalho, Peter F. Stadler, Danilo Sipoli Sanches & Ulisses Nunes da Rocha
Additional file 5. Table S5: Complete list of attributes in MarineMetagenomeDB. The ‘MarMDB attribute category’ column indicates the manually created category of each attribute.

Registration Year

  • 2023
    1
  • 2022
    19
  • 2021
    3
  • 2020
    5

Resource Types

  • Dataset
    19
  • Collection
    2
  • Data Paper
    2
  • Image
    2
  • Text
    2
  • Journal Article
    1

Affiliations

  • Federal University of Technology – Paraná
    28
  • Helmholtz Centre for Environmental Research
    18
  • University of Aveiro
    18
  • University of Algarve
    18
  • University of Lisbon
    18
  • Universidade de São Paulo
    18
  • Leipzig University
    18
  • Helmholtz Centre Potsdam - GFZ German Research Centre for Geosciences
    18
  • University of Sao Paulo
    5
  • Federal University of Uberlândia
    4