cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Myrmelachista ambigua Forel, 1893, n. sp.
Creators: name: Forel, A.
Publisher: name: Zenodo
Year: 1893
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Formicidae
Myrmelachista
Myrmelachista ambigua

description: 1. Myrmelachista ambigua, n. sp., [[worker]] (No. 55 a).
L. 2,3 mill. Mandibules fortement ponctuees, finement coriacees ntre les points, subopaques. Tete a peine plus longue que large. Yeux situes au milieu des cotes de la tete. Scapes courts. Antennes de 9 articles. Cependant le 2 me article du funicule montre une legere tendance a se partager en deux. Pas d'aire frontale, ni de sillon frontal. Occiput sans sillon. Le mesonotum et le pronotum sont peu convexes; la longueur du premier est plus de la moitie de celle du second. L'echancrure meso-metanotale est faible et n'apparait que par le fait que la convexite du mesonotum s'eleve au dessus du niveau de la face basale du metanotum qui est horizontale (presque rectiligne dans le sens longitudinal). Les stigmates sout places en arriere de la suture meso-metanotale et distants l'un de l'autre. La face basale du metanotum est subrectangulaire, subdeprimee et sensiblement plus longue que la face declive- Ecaille inclinee en avant, epaisse a sa base, echancree et tranchante au sommet. Cuisses assez renflees.
Tete, thorax et ecaille lisses, polis et tres luisants. Abdomen luisant, faiblement reticule. Une pilosite jaunatre tres fine et de longueur mediocre est parsemee peu abondamment sur tout le corps. Sur les tibias elle est legerement oblique. Sur les scapes elle est assez longue et dressee, situee d'un seul cote. Pas de pubescence adjacente.
D'un rouge un peu jaunatre. Abdomen noir avec ses segments etroitment bordes de jaunatre. Pattes et antennes testacees. Sur l'occiput, sur le pronotum, sur les cotes du thorax, au milieu des cuisses et sur la massue des antennes, de legers nuages brunatres (celui de l'occiput assez fort).
Cette espece est evidemment tres voisine de la M. kraatzii, Roger, mais elle a une pilosite assez longue, l'ecaille n'est pas verticale, ni ovale, les tarses anterieurs ne sont pas elargis, l'abdomen a une sculpture distincte (Roger n'a pas pu en voir chez la kraatzii) et la couleur est une peu differente. La M. rogeri, Andre, differe de la M. ambigua par sa couleur brune, ses funicules sans poils dresses, sa profonde echancrure meso-metanotale et sa taille plus faible. Les autres especes ont dix articles aux antennes et sont a d'autres egards moins parentes.
Une seule [[worker]].
(55). Rare. Only one specimen found as yet.
(55 a). Upper Richmond Valley. Shore of stream in the forest; on sand, under rubbish, & c.
description: Published as part of Forel, A., 1893, Formicides de l'Antille St. Vincent. Récoltées par Mons. H. H. Smith., pp. 333-418 in Transactions of the Entomological Society of London 1893 on pages 350-351
Martinsia scabrosa Chemsak & Linsley 1967
Creators: name: Ferreira, Gabriel Dos Santos
name: Ferreira, André Da Silva
name: Bravo, Freddy
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Cerambycidae
Martinsia
Martinsia scabrosa

description: Martinsia scabrosa Chemsak & Linsley, 1967
Distribution. BRAZIL (Maranh„o, Bahia, and Minas Gerais), BOLIVIA (Santa Cruz), PARAGUAY, and ARGENTINA (Salta, Santiago del Estero, and Chaco).
description: Published as part of Ferreira, Gabriel Dos Santos, Ferreira, André Da Silva & Bravo, Freddy, 2023, Annotated checklist of Cerambycidae (Coleoptera: Chrysomeloidea) from the Brazilian semi-arid region, with new species and new geographic records, pp. 1-81 in Zootaxa 5235 (1) on page 41, DOI: 10.11646/zootaxa.5235.1.1, http://zenodo.org/record/7610305
Additional file 5: Figure S3. of A high-quality annotated transcriptome of swine peripheral blood
Creators: name: Haibo Liu
name: Smith, Timothy
name: Nonneman, Dan
name: Dekkers, Jack
name: Tuggle, Christopher
Publisher: name: Figshare
Year: 2017
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Pharmacology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Inorganic Chemistry
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology

description: Characterization of the de novo transcriptome assembly. (A) Length distribution of PTs in the de novo transcriptome assembly; (B-C) Full-length assessment by using Swiss-Prot protein (B) and pig RefSeq mRNA (C) sequences as standards. In (B), percentage of coverage of the sequences as standards by PTs were calculated based only on the best high-scoring segment pairs (HSP) (“ungrouped percentage of coverage” calculation method) or based on all HSPs (“grouped percentage of coverage” calculation method) between the two aligned sequences; (D, F) Species distribution of top DC-megaBLAST (D) and BLASTX (F) hits of the PTs in the NT and NR databases, respectively; (E, G) Boxplots showing the distributions of percentage of identity, percentage of query coverage, bit scores and E-values of the top BLAST hits of the PTs in the NCBI NT and NR databases by using DC-megaBLAST (E) and BLASTX (G), respectively. For clearer visualization, larger outliers of bit scores and E-values are not displayed. (PDF 1743 kb)
Additional file 6: Figure S4. of A high-quality annotated transcriptome of swine peripheral blood
Creators: name: Haibo Liu
name: Smith, Timothy
name: Nonneman, Dan
name: Dekkers, Jack
name: Tuggle, Christopher
Publisher: name: Figshare
Year: 2017
Subjects: subject: Biochemistry
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Marine Biology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Computational Biology

description: Flowchart for genome-guided transcriptome assembly, annotation and filtering. The diagram shows the steps involved in construction and filtering of the genome-guided assembly, and includes the number of PTs that resulted from each step, where appropriate. Refer to the Methods section for details. The raw RNA-seq reads that were preprocessed as above (see the legend of Additional file 4: Figure S2) were mapped to the USMARCv1.0 reference genome by using STAR, and then assembled into PTs by using Cufflinks. PTs of 200 bases or shorter in length were removed from the resulting genome-guided transcriptome assembly before further analysis. Splicing status of the 162,294 PTs was determined and unspliced intronic PTs were discarded. Among the remaining PTs, those with significant BLAST hits in the NCBI NT and NR databases were determined by using DC-megaBLAST and BLASTX, with E-value cutoffs of 10−20 and 10−6, respectively. The potential biotypes of the PTs were determined based on the biotypes of their significant DC-megaBLAST hits. To complete the filtering, we removed from the remaining PTs: (i) PTs with top DC-megaBLAST hits on sequences originating from mitochondrial genomes; and (ii) PTs mapped to genomic regions of maximal CPB lower than 50× (low-CPB regions). The final filtered genome-guided transcriptome consisted of 32,702 PTs. (PDF 360 kb)
Dolichoderus lutosus var. nigriventris Forel, 1893, n. var.
Creators: name: Forel, A.
Publisher: name: Zenodo
Year: 1893
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Formicidae
Dolichoderus
Dolichoderus lutosus
Dolichoderus lutosus, f. smith, var. nigriventris

description: Dolichoderus lutosus, F. Smith, var. nigriventris, n. var. (No. 60 a).
[[worker]]. Differe des types bresiliens par son abdomen d'un noir luisant a peine brunatre, n'ayant que deux petites taches a la base et l'extremite d'un roux jaunatre. La ponctuation de l'abdomen est aussi plus forte et plus abondante. La tete et le thorax sont d'un jaune rougeatre plus vif. L'ecaille est distinctement acuminee comme l'indique Smith, ce qui n'etait pas le cas des individus de de Mayr (var. cingulatus, Mayr).
(60). Very rare. The only specimens seen were beaten from foliage. Forest near a stream.
(60 a). Forest near Chateaubelais (leeward), 250 ft.; close to open land. Jan. 26 th. Four workers, beaten from foliage. I searched vainly in the vicinity for the nest.
description: Published as part of Forel, A., 1893, Formicides de l'Antille St. Vincent. Récoltées par Mons. H. H. Smith., pp. 333-418 in Transactions of the Entomological Society of London 1893 on page 351
Ocroeme recki
Creators: name: Ferreira, Gabriel Dos Santos
name: Ferreira, André Da Silva
name: Bravo, Freddy
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Cerambycidae
Ocroeme
Ocroeme recki

description: Ocroeme recki (Melzer, 1931)
Distribution. BRAZIL (Maranh„o, Piauí, Paraíba, Bahia, Mato Grosso, Goiás, Minas Gerais, Espírito Santo, Rio de Janeiro, S„o Paulo, Paraná, Santa Catarina, and Rio Grande do Sul), BOLIVIA (Santa Cruz), ARGENTINA (Salta and Entre Ríos), and URUGUAY.
Material examined. 3 specimens, BRAZIL: “ BAHIA: Aracatu, Fazenda Lagoa do Tamburi, BA 263, km 400, sentido Vitória da Conquista /Brumado, Luz da residência, 26.x.2019, Ferreira, A.S. leg.” (MZFS).
description: Published as part of Ferreira, Gabriel Dos Santos, Ferreira, André Da Silva & Bravo, Freddy, 2023, Annotated checklist of Cerambycidae (Coleoptera: Chrysomeloidea) from the Brazilian semi-arid region, with new species and new geographic records, pp. 1-81 in Zootaxa 5235 (1) on page 41, DOI: 10.11646/zootaxa.5235.1.1, http://zenodo.org/record/7610305
Chimarra morobensis Cartwright 2020, sp. nov.
Creators: name: Cartwright, David
Publisher: name: Zenodo
Year: 2020
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Trichoptera
Philopotamidae
Chimarra
Chimarra morobensis

description: Chimarra morobensis sp. nov.
Figures 72–74
Holotype. Male (dried, pinned specimen CT-359 figured), PNG, Morobe District, Wau, 1200 m, about 7° 20' S, 146° 43' E, Malaise Trap, 7 July 1961, J. Sedlacek (BPBM).
Diagnosis. The male of C. morobensis can be separated from all other New Guinea species, including C. sappela, by the combination of the robust pincer-like inferior appendages, with ventral margin angled obtusely near middle, tapered in distal half, with slender, meso-distally pointed digitiform apices, in lateral view, plus the ventrad directed ventral lobes of segment X, convergent ventrally supporting the phallus.
Description. General body colour and wings fawn. Wings similar to those of C. ukarumpana (fig. 7). Length of forewing: male 4.9 mm. Forewings with forks 1, 2, 3 and 5 present, Rs sinuous or curved, thickened, basad of discoidal cell.
Male. Segment IX anterior margin in lateral view, with acute angular extension ventrally and small rounded extension dorsally (fig. 72), ventral process short, laterally compressed, basal to distal margin of segment IX (figs 72, 73), in lateral view appears rounded apically, length about 1.1 times width (fig. 72), in ventral view appears triangular, apically acute (fig. 73), preanal appendages, in lateral view appear sub-rectangular (fig. 72), in dorsal view appear sub-triangular (fig. 74). Segment X lateral lobes aligned laterad to phallus, hard to discern, with sensilla not discerned (figs 72, 74), in lateral view, ventral lobes slightly angled downwards, supporting phallus, apices appear acute (fig. 72). Phallus with two slender, relatively elongate spines embedded subapically (figs 72–74). Inferior appendages elongate, broadest in basal half, narrowed near midlength, tapered distally, apices acute, directed posteromesally (figs 72–74), in lateral view, angled at about 30° to horizontal, length about 4 times width, dorsal margin almost straight (fig. 72), in ventral view, lateral margins curved, mesal margin irregular near midlength, slightly concave in distal half (fig. 73).
Female. Unknown.
Etymology. Morobensis – Named after the type locality (Morobe Province).
Remarks. Chimarra morobensis is known from the type locality in north-east PNG.
description: Published as part of Cartwright, David, 2020, A review of the New Guinea species of Chimarra Stephens (Trichoptera: Philopotamidae), pp. 1-49 in Memoirs of Museum Victoria 79 on page 25, DOI: 10.24199/j.mmv.2020.79.01, http://zenodo.org/record/8065297
[INTERFACE-D26_Study on the Use of Digital Technologies in Teaching]
Creators: name: University of Aosta Valley
Publisher: name: Zenodo
Year: 2024
Subjects: Spoke 4 - Digital Innovation Toward Sustainable Mountain
INTERFACE Project
Mountain regeneration
ECS00000036

description: Quantitative and qualitative study on the use of digital technologies in teaching among actors involved (students, teachers, families, administrative staff supporting teaching)
Additional file 4: Figure S2. of A high-quality annotated transcriptome of swine peripheral blood
Creators: name: Haibo Liu
name: Smith, Timothy
name: Nonneman, Dan
name: Dekkers, Jack
name: Tuggle, Christopher
Publisher: name: Figshare
Year: 2017
Subjects: subject: Biochemistry
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: Marine Biology
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: 60506 Virology
subject: Computational Biology

description: Flowchart for de novo blood transcriptome assembly, annotation and filtering. The diagram shows the steps involved in construction and filtering of the de novo assembly, and includes the number of PTs that resulted from each step, where appropriate. Refer to the Materials and Methods section for details. Quality of the raw RNA-seq reads for each library was first checked with FASTQC. Subsequently, sequencing adaptors and low quality bases were trimmed from the raw reads. These trimmed reads were then digitally normalized to reduce k-mer redundancy. Normalized reads were assembled into putative Trinity transcripts (PTs), which are collectively called “de novo transcriptome assembly”. This assembly was then analyzed in several ways. First, the coding potentials of the PTs were predicted by using PLEK, with PTs of coding potentials higher than zero considered as potentially protein-coding. Then all PTs were separately aligned to the two pig reference genomes, USMARCv1.0 and SSC10.2, by using GMAP. Finally, PTs with significant BLAST hits in the NCBI NT and NR databases were determined by using DC-megaBLAST and BLASTX, with E-value cutoffs of 10−20 and 10−6, respectively. Because the alignment frequency of the PTs to the USMARCv1.0 reference genomes was much higher than to the SSC10.2 assembly, the de novo transcriptome was filtered based on the USMARCv1.0 mapping results. PTs with top megaBLAST hits on sequences from non-vertebrates and without better alignments with the two reference genomes were considered as “contaminants” and were filtered out. The potential biotypes of the PTs were determined based on the biotypes of their top megaBLAST hits if available. Other removed PTs were (i) PTs with top megaBLAST hits on sequences of mitochondrial genomes; (ii) unspliced intronic PTs; (iii) unspliced nonintronic PTs mapped to genomic regions of maximal coverage per base (CPB) lower than 50× (low-CPB regions); and (iv) multiple mapping or nonmapping PTs on the USMARCv1.0 assembly without top megaBLAST hits on RNA sequences in the NT database. The final filtered de novo transcriptome assembly was composed of 126,225 PTs. (PDF 498 kb)
Chimarra damma Cartwright 2020, sp. nov.
Creators: name: Cartwright, David
Publisher: name: Zenodo
Year: 2020
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Trichoptera
Philopotamidae
Chimarra
Chimarra damma

description: Chimarra damma sp. nov.
Figures 75–77
Holotype. Male (dried, pinned specimen CT-409 figured), PNG, New Britain, Gazelle Peninsula, Gaulim, 140 m, about 4° 44' S, 152° 08' E, Malaise Trap, 21–27 October 1962, J. Sedlacek (BPBM).
Diagnosis. The male of C. damma can be separated from all other New Guinea species, including the somewhat superficially similar C. kebarana, by the combination of the bifid apices on the plate-like lateral lobes of segment X and the short inferior appendages, with the ventral margin slightly curved in lateral view.
Description. General body colour and wings fawn or light brownish. Wings similar to those of C. ukarumpana (fig. 7). Length of forewing: male 4.6 mm. Forewings with forks 1, 2, 3 and 5 present, Rs moderately sinuous or curved, thickened, basad to discoidal cell.
Male. Segment IX anterior margin in lateral view, with weak angular extension ventrally (fig. 75), ventral process short, basal to distal margin of segment IX (figs 75, 76), in lateral view triangular, length about same as width, preanal appendages, relatively large, in lateral view ovate with rounded apices (fig. 75). Segment X lateral lobes appear rod-like but are plate-like laterad of phallus, apices bifid, situated ventral to phallus, sensilla not discerned (figs 75–77). Phallus (with endotheca possibly not fully everted) with two slender spines included subapically and small field of short spines appear apically (figs 75–77). Inferior appendages short, broadest basally, tapered slightly distally, strongly incurved in about apical third, apices acute (figs 75, 76), in lateral view appear sub-ovate, angled at about 60° to horizontal, length about 3 times width, dorsal margin almost straight and ventral margin slightly convex (fig. 75), in ventral view obtusely angled on basomesal margin, mesal and lateral margins curved meso-distally (fig. 76).
Female. Unknown.
Etymology. Damma – Latin for gazelle or deer (type locality – Gazelle Peninsula).
Remarks. Chimarra damma is known from one locality on north-east New Britain Island, PNG.
description: Published as part of Cartwright, David, 2020, A review of the New Guinea species of Chimarra Stephens (Trichoptera: Philopotamidae), pp. 1-49 in Memoirs of Museum Victoria 79 on page 25, DOI: 10.24199/j.mmv.2020.79.01, http://zenodo.org/record/8065297
Sphalloeme costipennis Melzer 1928
Creators: name: Ferreira, Gabriel Dos Santos
name: Ferreira, André Da Silva
name: Bravo, Freddy
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Cerambycidae
Sphalloeme
Sphalloeme costipennis

description: Sphalloeme costipennis Melzer, 1928
Distribution. BRAZIL (Bahia, Espírito Santo, Rio de Janeiro, S„o Paulo, Paraná, Santa Catarina, and Rio Grande do Sul) and ARGENTINA (Misiones).
description: Published as part of Ferreira, Gabriel Dos Santos, Ferreira, André Da Silva & Bravo, Freddy, 2023, Annotated checklist of Cerambycidae (Coleoptera: Chrysomeloidea) from the Brazilian semi-arid region, with new species and new geographic records, pp. 1-81 in Zootaxa 5235 (1) on page 41, DOI: 10.11646/zootaxa.5235.1.1, http://zenodo.org/record/7610305
Additional file 4: Figure S2. of A high-quality annotated transcriptome of swine peripheral blood
Creators: name: Haibo Liu
name: Smith, Timothy
name: Nonneman, Dan
name: Dekkers, Jack
name: Tuggle, Christopher
Publisher: name: Figshare
Year: 2017
Subjects: subject: Biochemistry
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: Immunology
subject: FOS: Clinical medicine
subject: 69999 Biological Sciences not elsewhere classified
subject: Marine Biology
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Virology
subject: Computational Biology

description: Flowchart for de novo blood transcriptome assembly, annotation and filtering. The diagram shows the steps involved in construction and filtering of the de novo assembly, and includes the number of PTs that resulted from each step, where appropriate. Refer to the Materials and Methods section for details. Quality of the raw RNA-seq reads for each library was first checked with FASTQC. Subsequently, sequencing adaptors and low quality bases were trimmed from the raw reads. These trimmed reads were then digitally normalized to reduce k-mer redundancy. Normalized reads were assembled into putative Trinity transcripts (PTs), which are collectively called “de novo transcriptome assembly”. This assembly was then analyzed in several ways. First, the coding potentials of the PTs were predicted by using PLEK, with PTs of coding potentials higher than zero considered as potentially protein-coding. Then all PTs were separately aligned to the two pig reference genomes, USMARCv1.0 and SSC10.2, by using GMAP. Finally, PTs with significant BLAST hits in the NCBI NT and NR databases were determined by using DC-megaBLAST and BLASTX, with E-value cutoffs of 10−20 and 10−6, respectively. Because the alignment frequency of the PTs to the USMARCv1.0 reference genomes was much higher than to the SSC10.2 assembly, the de novo transcriptome was filtered based on the USMARCv1.0 mapping results. PTs with top megaBLAST hits on sequences from non-vertebrates and without better alignments with the two reference genomes were considered as “contaminants” and were filtered out. The potential biotypes of the PTs were determined based on the biotypes of their top megaBLAST hits if available. Other removed PTs were (i) PTs with top megaBLAST hits on sequences of mitochondrial genomes; (ii) unspliced intronic PTs; (iii) unspliced nonintronic PTs mapped to genomic regions of maximal coverage per base (CPB) lower than 50× (low-CPB regions); and (iv) multiple mapping or nonmapping PTs on the USMARCv1.0 assembly without top megaBLAST hits on RNA sequences in the NT database. The final filtered de novo transcriptome assembly was composed of 126,225 PTs. (PDF 498 kb)
Chimarra bicuspidis Cartwright 2020, sp. nov.
Creators: name: Cartwright, David
Publisher: name: Zenodo
Year: 2020
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Trichoptera
Philopotamidae
Chimarra
Chimarra bicuspidis

description: Chimarra bicuspidis sp. nov.
Figures 80–82
Holotype. Male (specimen in alcohol, CT-349, figured), PNG, Central Province, Aieme River, about 9° 25' S, 147° 15' E, net, 23 June 1986, A. Wells (NMV, T-22458).
Diagnosis. The male of C. bicuspidis is similar to C. bifida and C. kokodana Kimmins in the bifid apices on the inferior appendages, but can be separated from the latter two and all other New Guinea species by the combination of the inferior appendages being relatively straight, angled at about 70° to horizontal in lateral view and with bifid apices.
Description. General body colour and wings pale (faded). Wings similar to those of C. ukarumpana (fig. 7). Length of forewing: male 4.5 mm. Forewing with forks 1, 2, 3 and 5 present, Rs not sinuous or curved, slightly thickened, basad of discoidal cell; hind wing with forks 1, 2, 3 and 5 present.
Male. Segment IX anterior margin in lateral view, anteroventrally broadly rounded, ventral process short, basal to distal margin of segment IX, in lateral view, appears triangular, apex acute, length about 0.8 times basal width (fig. 80), in ventral view appears rounded apically (fig. 81), preanal appendages ovate (figs 81, 82). Segment X with lateral lobes (difficult to discern) relatively long, laterally compressed, aligned laterally and mostly adpressed to phallus, apices acute, sensilla not discerned (figs 80, 82), in lateral view, lateral lobes appear ovate (fig. 80), in dorsal and ventral views, appear slender, dilated or flanged subapically (figs 81, 82). Phallus without any included spines discerned, but with robust ventral projection (or acute ventromesal projection of the phallobase?) subapically (figs 80, 81). Inferior appendages slender, broadest in basal third, tapered slightly in distal two thirds, apices bifid and directed posteromesally (figs 80, 82), in lateral view, angled at about 70° to horizontal, length about 4.5 times width, dorsal margin slightly concave, ventral margin mostly straight (fig. 80), in dorsal view, mesal and lateral margins curved (fig. 82).
Female. Unknown.
Etymology. Bicuspidis – Latin for two points (of a spear; apices of inferior appendages).
Remarks. Chimarra bicuspidis is known only from the type locality in south-east PNG.
description: Published as part of Cartwright, David, 2020, A review of the New Guinea species of Chimarra Stephens (Trichoptera: Philopotamidae), pp. 1-49 in Memoirs of Museum Victoria 79 on page 27, DOI: 10.24199/j.mmv.2020.79.01, http://zenodo.org/record/8065297
Chimarra bifida Cartwright 2020, sp. nov.
Creators: name: Cartwright, David
Publisher: name: Zenodo
Year: 2020
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Trichoptera
Philopotamidae
Chimarra
Chimarra bifida

description: Chimarra bifida sp. nov.
Figures 83–85
Holotype. Male (dried, pinned specimen CT-384 figured), Indonesia, Papua Province, W Sentani, 75 m, about 2° 36' S, 140° 37'E, June 1959, T.C. Maa (BPBM).
Paratypes. 1 male (dried, pinned specimen CT-385), Indonesia, Papua Province, collected with holotype (BPBM); 1 male (in alcohol, specimen CT-710), PNG, Western Highlands, Baiyer River Sanctuary, Trauna River, 5 35' S, 144 10' E, UV light, 17 June 1985, A. Wells (NMV).
Diagnosis. The males of C. bifida are similar to C. kokodana and C. bicuspidis in the bifid apices on the inferior appendages but can be separated from the latter two and all other New Guinea species, including C. sinuosa, by the combination of features on the inferior appendages, which in lateral view are sinusoidal with bifid apices.
Description. Male. General body colour and wings light brownish. Wings similar to those of C. ukarumpana (fig. 7). Length of forewing: male 4.5–4.7 mm. Forewing with forks 1, 2, 3 and 5 present, Rs straight, not sinuous or curved, slightly thickened, basad of discoidal cell.
Male genitalia. Segment IX anterior margin in lateral view, anteroventrally rounded (fig. 83), ventral process short, triangular, apex acute, basal to distal margin of segment IX (figs 83, 84), in lateral view, length about 0.7–0.8 times width, preanal appendages small, ovate (fig. 83). Segment X lateral lobes laterally compressed in basal half, apices narrowly rounded, with sensilla not discerned (figs 83–85), in lateral view, lobes broadest in basal half, narrowed strongly near middle, slender in distal third (fig. 83), in dorsal and ventral views mostly adpressed to phallus (figs 84, 85). Phallus without any spines discerned. Inferior appendages broadest in basal half, tapered slightly distally, apices bifid, directed posteromesally (figs 83–85), in lateral view, angled near perpendicularly, sinusoidal, dorsal margin convex, ventral margin convex in basal half, concave in distal half (fig. 83).
Female. Unknown.
Etymology. Bifida – Latin for forked, split, divided into two parts (apices of inferior appendages).
Remarks. Chimarra bifida is known from three males collected from both north-east West Papua and central PNG. The two sites are separated by about 530 km in a straight line.
description: Published as part of Cartwright, David, 2020, A review of the New Guinea species of Chimarra Stephens (Trichoptera: Philopotamidae), pp. 1-49 in Memoirs of Museum Victoria 79 on pages 27-28, DOI: 10.24199/j.mmv.2020.79.01, http://zenodo.org/record/8065297
Additional file 5: Figure S3. of A high-quality annotated transcriptome of swine peripheral blood
Creators: name: Haibo Liu
name: Smith, Timothy
name: Nonneman, Dan
name: Dekkers, Jack
name: Tuggle, Christopher
Publisher: name: Figshare
Year: 2017
Subjects: subject: Biochemistry
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Pharmacology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Inorganic Chemistry
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology

description: Characterization of the de novo transcriptome assembly. (A) Length distribution of PTs in the de novo transcriptome assembly; (B-C) Full-length assessment by using Swiss-Prot protein (B) and pig RefSeq mRNA (C) sequences as standards. In (B), percentage of coverage of the sequences as standards by PTs were calculated based only on the best high-scoring segment pairs (HSP) (“ungrouped percentage of coverage” calculation method) or based on all HSPs (“grouped percentage of coverage” calculation method) between the two aligned sequences; (D, F) Species distribution of top DC-megaBLAST (D) and BLASTX (F) hits of the PTs in the NT and NR databases, respectively; (E, G) Boxplots showing the distributions of percentage of identity, percentage of query coverage, bit scores and E-values of the top BLAST hits of the PTs in the NCBI NT and NR databases by using DC-megaBLAST (E) and BLASTX (G), respectively. For clearer visualization, larger outliers of bit scores and E-values are not displayed. (PDF 1743 kb)
Stenoeme annularis Martins 1980
Creators: name: Ferreira, Gabriel Dos Santos
name: Ferreira, André Da Silva
name: Bravo, Freddy
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Cerambycidae
Stenoeme
Stenoeme annularis

description: Stenoeme annularis Martins, 1980
Distribution. BRAZIL (Bahia, Minas Gerais, and Espírito Santo).
description: Published as part of Ferreira, Gabriel Dos Santos, Ferreira, André Da Silva & Bravo, Freddy, 2023, Annotated checklist of Cerambycidae (Coleoptera: Chrysomeloidea) from the Brazilian semi-arid region, with new species and new geographic records, pp. 1-81 in Zootaxa 5235 (1) on page 41, DOI: 10.11646/zootaxa.5235.1.1, http://zenodo.org/record/7610305
Additional file 7: Figure S5. of A high-quality annotated transcriptome of swine peripheral blood
Creators: name: Haibo Liu
name: Smith, Timothy
name: Nonneman, Dan
name: Dekkers, Jack
name: Tuggle, Christopher
Publisher: name: Figshare
Year: 2017
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: 110309 Infectious Diseases
subject: FOS: Health sciences

description: Characterization of the genome-guided transcriptome assembly. (A) Length distribution of PTs in the genome-guided transcriptome assembly; (B, C) Boxplots showing the distributions of percentage of identity, percentage of query coverage, bit scores and E-values of the top BLAST hits of the PTs in the NCBI NT and NR databases by using DC-megaBLAST (B) and BLASTX (C). For clear visualization, larger outliers of bit scores and E-values are not displayed. (PDF 1877Â kb)
Additional file 7: Figure S5. of A high-quality annotated transcriptome of swine peripheral blood
Creators: name: Haibo Liu
name: Smith, Timothy
name: Nonneman, Dan
name: Dekkers, Jack
name: Tuggle, Christopher
Publisher: name: Figshare
Year: 2017
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Infectious Diseases
subject: FOS: Health sciences

description: Characterization of the genome-guided transcriptome assembly. (A) Length distribution of PTs in the genome-guided transcriptome assembly; (B, C) Boxplots showing the distributions of percentage of identity, percentage of query coverage, bit scores and E-values of the top BLAST hits of the PTs in the NCBI NT and NR databases by using DC-megaBLAST (B) and BLASTX (C). For clear visualization, larger outliers of bit scores and E-values are not displayed. (PDF 1877Â kb)
Stenoeme bellarmini Gounelle 1909
Creators: name: Ferreira, Gabriel Dos Santos
name: Ferreira, André Da Silva
name: Bravo, Freddy
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Cerambycidae
Stenoeme
Stenoeme bellarmini

description: Stenoeme bellarmini Gounelle, 1909
Distribution. BRAZIL (Piauí and Bahia).
Material examined. 1 specimen, BRAZIL: “ BAHIA: Aracatu, Fazenda Lagoa do Tamburi, BA 263, km 400, sentido Vitória da Conquista, Brumado, Caatinga arbórea, trilha do umbuzeiro, 1.xii.2013, Ferreira, A.S. leg.” (MZFS).
description: Published as part of Ferreira, Gabriel Dos Santos, Ferreira, André Da Silva & Bravo, Freddy, 2023, Annotated checklist of Cerambycidae (Coleoptera: Chrysomeloidea) from the Brazilian semi-arid region, with new species and new geographic records, pp. 1-81 in Zootaxa 5235 (1) on page 41, DOI: 10.11646/zootaxa.5235.1.1, http://zenodo.org/record/7610305
Chimarra kewabi Cartwright 2020, sp. nov.
Creators: name: Cartwright, David
Publisher: name: Zenodo
Year: 2020
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Trichoptera
Philopotamidae
Chimarra
Chimarra kewabi

description: Chimarra kewabi sp. nov.
Figures 87–89
Holotype. Male (dried, pinned specimen CT-405 figured), PNG, Southern Highlands District, Mount Ialibu, 2650 m?, about 6° 15' S, 144° 03' E, 8–14 September 1968, J.L. Gressitt (BPBM).
Diagnosis. The male of C. kewabi can be separated from all other New Guinea species, including C. sinuosa and C. falcata, by the combination of characters that include the lateral lobes of segment X, which are dorso-ventrally flattened in the distal half in lateral view, with two small projections (sensilla?) subapically (like C. sinuosa), but in dorsal and ventral views, they are dilated in the distal half and the inferior appendages are slender, inflexed apically, almost positioned perpendicularly and tapered gradually distally, in lateral view.
Description. General body colour and wings light brownish. Wings similar to those of C. ukarumpana (fig. 7). Length of forewing: male 6.8 mm. Forewing with forks 1, 2, 3 and 5 present, Rs slightly sinuous or curved, slightly thickened, basad of discoidal cell; hind wing with forks 1, 2, 3 and 5 present.
Male. Segment IX anterior margin in lateral view, anteroventrally broadly rounded (fig. 87), ventral process short, sub-triangular, apex acute, apex nearly level with distal margin of segment IX (figs 87, 88), in lateral view, length about 0.7 width, preanal appendages slightly laterally flattened, in lateral view, rounded (fig. 87), in dorsal view, appear rod-shaped (fig. 89). Segment X lateral lobes slightly dorso-ventrally flattened in distal half, apices slightly outwardly angled, in lateral view, broadest in basal half, tapered in distal half, with two subapical projections (sensilla?; fig. 87), in dorsal and ventral views, lobes robust, slightly dilated with curved margins in distal half (figs 88, 89). Phallus with one short, slender spine embedded subapically (figs 87, 89). Inferior appendages broadest in basal half, tapered distally, apices acute and directed posteromesally (figs 87–89), in lateral view, angled nearly vertically at about 80° to horizontal, length about 4 times width at base, dorsal and ventral margins mostly straight (fig. 87), in dorsal view, mesal and lateral margins angled near midlength (fig. 89).
Female. Unknown.
Etymology. Kewabi – named for the native PNG language spoken in the area near the type locality.
Remarks. Chimarra kewabi is known from the type locality in central PNG.
description: Published as part of Cartwright, David, 2020, A review of the New Guinea species of Chimarra Stephens (Trichoptera: Philopotamidae), pp. 1-49 in Memoirs of Museum Victoria 79 on pages 28-30, DOI: 10.24199/j.mmv.2020.79.01, http://zenodo.org/record/8065297
Additional file 6: Figure S4. of A high-quality annotated transcriptome of swine peripheral blood
Creators: name: Haibo Liu
name: Smith, Timothy
name: Nonneman, Dan
name: Dekkers, Jack
name: Tuggle, Christopher
Publisher: name: Figshare
Year: 2017
Subjects: subject: Biochemistry
subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Marine Biology
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Computational Biology

description: Flowchart for genome-guided transcriptome assembly, annotation and filtering. The diagram shows the steps involved in construction and filtering of the genome-guided assembly, and includes the number of PTs that resulted from each step, where appropriate. Refer to the Methods section for details. The raw RNA-seq reads that were preprocessed as above (see the legend of Additional file 4: Figure S2) were mapped to the USMARCv1.0 reference genome by using STAR, and then assembled into PTs by using Cufflinks. PTs of 200 bases or shorter in length were removed from the resulting genome-guided transcriptome assembly before further analysis. Splicing status of the 162,294 PTs was determined and unspliced intronic PTs were discarded. Among the remaining PTs, those with significant BLAST hits in the NCBI NT and NR databases were determined by using DC-megaBLAST and BLASTX, with E-value cutoffs of 10−20 and 10−6, respectively. The potential biotypes of the PTs were determined based on the biotypes of their significant DC-megaBLAST hits. To complete the filtering, we removed from the remaining PTs: (i) PTs with top DC-megaBLAST hits on sequences originating from mitochondrial genomes; and (ii) PTs mapped to genomic regions of maximal CPB lower than 50× (low-CPB regions). The final filtered genome-guided transcriptome consisted of 32,702 PTs. (PDF 360 kb)
Additional file 8: Figure S6. of A high-quality annotated transcriptome of swine peripheral blood
Creators: name: Haibo Liu
name: Smith, Timothy
name: Nonneman, Dan
name: Dekkers, Jack
name: Tuggle, Christopher
Publisher: name: Figshare
Year: 2017
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Marine Biology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Computational Biology

description: Integration of the de novo and genome-guided assemblies. This diagram shows the steps used to integrate the two assemblies that were described in Figs. 1 and 2, and includes the number of PTs that resulted from each step, where appropriate; the overall goal was to identify those genome-guided assemblies that added information to the de novo assembly. The sense strands of 113,286 spliced PTs from the de novo assembly (Set A) were first determined based on consensus splice site sequences after alignment to the USMARCv1.0 reference genome. The spliced PTs in the filtered de novo transcriptome were then compared to their counterparts in the filtered genome-guided transcriptome (Set B) by using the Bedtools intersect utility and custom Perl scripts. If a spliced PT from the de novo assembly shared at least one intron or exon, or all introns and exons with a spliced PT from the genome-guided assembly mapped on the sense strand, then they were considered overlapping or exactly the same, respectively. In addition, unspliced PTs from the de novo and genome-guided assemblies were directly compared, without considering their sense strands, by using Bedtools intersect utility. PTs from the de novo transcriptome assembly, which did not overlap PTs from the genome-guided transcriptome assembly were claimed to be de novo transcriptome assembly-specific, and vice versa. The final integrated transcriptome consisted of 132,928 PTs, which included all 126,225 PTs from the filtered de novo transcriptome assembly and 6703 PTs specific to the filtered genome-guided transcriptome, including both 5972 spliced and 731 unspliced PTs. (PDF 337Â kb)
Stenoeme furca Nascimento & Bravo 2018
Creators: name: Ferreira, Gabriel Dos Santos
name: Ferreira, André Da Silva
name: Bravo, Freddy
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Cerambycidae
Stenoeme
Stenoeme furca

description: Stenoeme furca Nascimento & Bravo, 2018
Distribution. BRAZIL (Bahia).
description: Published as part of Ferreira, Gabriel Dos Santos, Ferreira, André Da Silva & Bravo, Freddy, 2023, Annotated checklist of Cerambycidae (Coleoptera: Chrysomeloidea) from the Brazilian semi-arid region, with new species and new geographic records, pp. 1-81 in Zootaxa 5235 (1) on page 41, DOI: 10.11646/zootaxa.5235.1.1, http://zenodo.org/record/7610305
Canoni e cataloghi collaborativi per una filologia sostenibile in ambiente digitale
Creators: name: Berti, Monica
Publisher: name: Zenodo
Year: 2024

description: Slides presented at the International Wokrshop Orizzonti della filologia digitale. L'Antologia greca per ripensare formati, paradigmi e collaborazione, held at the Università degli Studi di Napoli Federico on April 16-18, 2024
Additional file 8: Figure S6. of A high-quality annotated transcriptome of swine peripheral blood
Creators: name: Haibo Liu
name: Smith, Timothy
name: Nonneman, Dan
name: Dekkers, Jack
name: Tuggle, Christopher
Publisher: name: Figshare
Year: 2017
Subjects: subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Marine Biology
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Computational Biology

description: Integration of the de novo and genome-guided assemblies. This diagram shows the steps used to integrate the two assemblies that were described in Figs. 1 and 2, and includes the number of PTs that resulted from each step, where appropriate; the overall goal was to identify those genome-guided assemblies that added information to the de novo assembly. The sense strands of 113,286 spliced PTs from the de novo assembly (Set A) were first determined based on consensus splice site sequences after alignment to the USMARCv1.0 reference genome. The spliced PTs in the filtered de novo transcriptome were then compared to their counterparts in the filtered genome-guided transcriptome (Set B) by using the Bedtools intersect utility and custom Perl scripts. If a spliced PT from the de novo assembly shared at least one intron or exon, or all introns and exons with a spliced PT from the genome-guided assembly mapped on the sense strand, then they were considered overlapping or exactly the same, respectively. In addition, unspliced PTs from the de novo and genome-guided assemblies were directly compared, without considering their sense strands, by using Bedtools intersect utility. PTs from the de novo transcriptome assembly, which did not overlap PTs from the genome-guided transcriptome assembly were claimed to be de novo transcriptome assembly-specific, and vice versa. The final integrated transcriptome consisted of 132,928 PTs, which included all 126,225 PTs from the filtered de novo transcriptome assembly and 6703 PTs specific to the filtered genome-guided transcriptome, including both 5972 spliced and 731 unspliced PTs. (PDF 337Â kb)
Temnopis latifascia Martins & Monne 1975
Creators: name: Ferreira, Gabriel Dos Santos
name: Ferreira, André Da Silva
name: Bravo, Freddy
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Cerambycidae
Temnopis
Temnopis latifascia

description: Temnopis latifascia Martins & Monné, 1975
Distribution. BRAZIL (Maranh„o, Pernambuco, Bahia, Goiás, Distrito Federal Minas Gerais, Espírito Santo, Rio de Janeiro, S„o Paulo, Paraná, Santa Catarina, and Rio Grande do Sul,), BOLIVIA (Santa Cruz), PARAGUAY, and ARGENTINA (Salta and Misiones).
description: Published as part of Ferreira, Gabriel Dos Santos, Ferreira, André Da Silva & Bravo, Freddy, 2023, Annotated checklist of Cerambycidae (Coleoptera: Chrysomeloidea) from the Brazilian semi-arid region, with new species and new geographic records, pp. 1-81 in Zootaxa 5235 (1) on page 42, DOI: 10.11646/zootaxa.5235.1.1, http://zenodo.org/record/7610305
Additional file 9: Figure S7. of A high-quality annotated transcriptome of swine peripheral blood
Creators: name: Haibo Liu
name: Smith, Timothy
name: Nonneman, Dan
name: Dekkers, Jack
name: Tuggle, Christopher
Publisher: name: Figshare
Year: 2017
Subjects: subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Computational Biology

description: Schematic summary of BLAST2GO mapping and annotation. (A) Distribution of source databases based on which GO terms were mapped to PTs in the integrated transcriptome assembly; (B) Distribution of the number of GO terms mapped to PTs of the integrated transcriptome assembly; (C) Distribution of evidence codes of the annotated GO terms mapped to PTs of the integrated transcriptome assembly; (D) Distribution of the number of GO terms mapped to PTs of the integrated transcriptome assembly; (E) Distribution of GO terms at different levels of the hierarchy of GO terms; (F) Distribution of annotation scores of GO terms. (PDF 110Â kb)