172,030 research outputs found
Metagenomic dataset of flesh-footed shearwater (Ardenna carneipes)
No full textSource of sampling and extraction of DNA
A cutaneous tissue sample was collected from Flesh-footed Shearwater originating from Lord Howe Island, New South Wales, located approximately 500 km off the east coast of Australia during April 2015 (sample ID15-1527, GPS location: 32.53° S, 159.08° E). The sample was collected with the permission of the Lord Howe Island Board (permit no. LHIB 02/14) under the approval of the University of Tasmania and Charles Sturt University Animal Ethics Committees (permit no. A0010874, A0011586, and 09/046). The genomic DNA was isolated according to our previously established protocol (Sarker et al., 2017) using the Qiagen Blood and Tissue mini kit (Qiagen, Germany). The extracted DNA has been stored at -20 °C for further testing at Charles Sturt University.
Sequencing, assembly and annotation of complete mitogenome of A. carneipes
The library preparation and sequencing was performed as previously described (Sarker et al., 2017). Briefly, the paired-end library with an insert size of 150 bp was prepared using the Illumina paired-end sample preparation kit (Illumina, San Diego, CA) according to the manufacturer's instructions. Sequencing of the pooled DNA-library was performed on a HiSeq4000 sequencing platform (Illumina) according to the manufacturer’s instructions by Novogene, China. Sequencing data used in this study were analysed according to the previously established pipeline (Sarker et al., 2017; Sarker et al., 2019a; Sarker et al., 2019b) using Geneious (version 10.2.2, Biomatters, New Zealand) and CLC Genomics Workbench (version 9.5.4). Briefly, a total of 14.42 million reads with a read length of 150 bp was used to obtain the complete mitochondrial genome of A. carneipes
Sigalegalephrynus Smart, Sarker, Arifin, Harvey, Sidik, Hamidy, Kurniawan & Smith 2017
No full textKey to the species of Sigalegalephrynus 1 Adult males have a stout body with stocky limbs, and dorsum with a white diamond shaped mark or unmarked (Figs. 4 A–B); snout truncated in dorsal profile, and tympanic annulus well developed and covered with sharply raised tubercles (Figs. 5 A– B)................................................................................................. 2 - Adult males and juveniles with a gracile body and lanky limbs, and dorsum with an hourglass shaped mark (Figs. 4 C–E); snout moderately mucronated in dorsal profile, and tympanic annulus not covered by sharply raised tubercles (Figs. 5 C–E)...... 3 2 Adult males> 24 mm in SVL, a white diamond shaped mark present on dorso-scapular region, and venter maculated in adult males (Fig. 4B); subarticular tubercle of finger I as wide as width of inner metacarpal tubercle, tip of finger IV extending beyond distal phalangeal articulation of finger III, when addpressed (Fig. 6B)............................................................................................................................... S. gayoluesensis - Adult males 30 mm in SVL, venter in adult males maculated and anastomotic, and tubercles on body with dark brown or black keratinized tips (Fig. 4C); nuptial pads in adult males with black-tipped spicules (Fig. 5C); finger tips truncated and expanded (Fig. 6C)............................................................................ S. mandailinguensis - Adult males <30 mm in SVL, venter in adult males not maculated and anastomotic, but slightly spotted, and tubercles on body round and white-tipped (Fig. 4E); nuptial pads in adult males with white-tipped spicules (Fig. 5E); fingertips truncated but not expanded (Fig. 6E)............................................................................. S. harveyiPublished as part of Sarker, Goutam C., Wostl, Elijah, Thammachoti, Panupong, Sidik, Irvan, Hamidy, Amir, Kurniawan, Nia & Smith, Eric N., 2019, New species, diversity, systematics, and conservation assessment of the Puppet Toads of Sumatra (Anura: Bufonidae: Sigalegalephrynus), pp. 365-391 in Zootaxa 4679 (2) on pages 382-383, DOI: 10.11646/zootaxa.4679.2.9, http://zenodo.org/record/377264
Planning in India: where is natural resources in the development strategy?
No full textNeither the draft approach paper to the previous plan strategies nor the draft approach of Eleventh Five Year Plan of India (2007- 12) address natural capital as a sources of growth in the development strategy of Indian Planning . But, it is argued that the development or degradation of natural capital makes a big difference to the life of masses. Also, the theoretical model in development economics argues that if the disadvantages of resource and land limitations are very larger than the advantages of technological progress, it will cause the growth of income per worker falling. So, without any piecemeal development programme, sustainable development programmes that integrates natural capital with the continuous development process strengthening the links between environmental regeneration and economic growth needs to be addressed in the planning strategy of India through continuous and integrated programmes and the schemes.Natural resources; Livelihood Assets; Five capital assets; Natural Capital in Development Economics
The role of institutional repositories in addressing higher education challenges
No full textOver the last decade, Higher Education around the world is facing a number of challenges. Challenges such as adopting new technologies, improving the quality of learning and teaching, widening participation, student retention, curriculum design/alignment, student employability, funding and the necessity to improve governance are considered particularly in many literature. To effectively operate and to survive in this globalization era, Higher Education institutions need to respond those challenges in an efficient way. This paper proposes ways in which institutional data repositories can be utilized to address the challenges found in different literature. Also we discuss which repositories can be shared across the institutions and which need not to be shared in order to address those challenges. Finally the paper discusses the barriers to sharing Higher Education repositories and how those barriers can be addressed
Metagenomic dataset of Wedge-tailed shearwater (Ardenna pacifica)
No full textA cutaneous tissue sample was collected from Wedge-tailed shearwater originating from Lord Howe Island, New South Wales (ID:15-1526, year of sampling: 2015, GPS location: 32.53° S, 159.08° E). The sample was collected with the permission of the Lord Howe Island Board (permit no. LHIB 02/14) under the approval of the University of Tasmania and Charles Sturt University Animal Ethics Committees (permit no. A0010874, A0011586, and 09/046). The genomic DNA was isolated according to our previously established protocol (Sarker et al., 2017) using the Qiagen Blood and Tissue mini kit (Qiagen, Germany). The extracted DNA has been stored at -20 °C at Charles Sturt University. The library preparation and sequencing was performed as previously described (Sarker et al., 2017) and cite SW1 paper. Sequencing data used in this study were analysed according to the previously established pipeline (Sarker et al., 2017; Sarker et al., 2019a; Sarker et al., 2019b) cite SW1 paper using Geneious (version 10.2.2, Biomatters, New Zealand) and CLC Genomics Workbench (version 9.5.4). Briefly, a total of 15.36 million reads with a read length of 150 bp was used to obtain the complete mitogenome of A. pacifica
Students’ performance prediction by using institutional internal and external open data sources
No full textExploring student predictive model that relies on institutional databases and open data instead of traditional questionnaires
No full textResearch in student retention and progression to completion is traditionally survey-based, where researchers collect data through questionnaires and interviewing students. The major issues with survey-based study are the potentially low response rates and cost. Nevertheless, a large number of datasets that could inform the questions that students are explicitly asked in surveys is commonly available in the external open datasets. This paper describes a new student predictive model for student progression that relies on the data available in institutional internal databases and external open data, without the need for surveys. The results of empirical study for undergraduate students in their first year of study shows that this model can perform as well as or even out-perform traditional survey-based ones
Linked data, data mining and external open data for better prediction of at-risk students
No full textResearch in student retention is traditionally survey-based, where researchers use questionnaires to collect student data to analyse and to develop student predictive model. The major issues with survey-based study are the potentially low response rates, time consuming and costly. Nevertheless, a large number of datasets that could inform the questions that students are explicitly asked in surveys is commonly available in the external open datasets. This paper describes a new student predictive model that uses commonly available external open data instead of traditional questionnaires/surveys to spot ‘at-risk’ students. Considering the promising behavior of neural networks led us to develop student predictive models to predict ‘at-risk’ students. The results of empirical study for undergraduate students in their first year of study shows that this model can perform as well as or even out-perform traditional survey-based ones. The prediction performance of this study was also compared with that of logistic regression approach. The results shows that neural network slightly improved the overall model accuracy however, according to the model sensitivity, it is suggested that logistic regression performs better for identifying ‘at-risk’ students in their programme of stud
Sigalegalephrynus burnitelongensis Sarker & Wostl & Thammachoti & Sidik & Hamidy & Kurniawan & Smith 2019, sp. nov.
No full textSigalegalephrynus burnitelongensis sp. nov. Figs. 2 A–C, 4A, 5A, 6A Holotype. Museum Zoologicum Bogoriense of Amphibian Collection, MZB.Amph.30413 (field number ENS 18884), an adult male. Collected from a stream of Gunung Burni Telong near Desa (Village) Rambune, Kecamatan (Subdistrict) Timang Gajah, Kabupaten (Regency) Bener Meriah, Province of Aceh, Indonesia. 4.76455ºN, 96.80138ºE, 1519 m a.s.l (Fig. 3). Collected by Goutam C. Sarker, Irvan Sidik, Syaripudin and Muhammad Ikhsan on 9 August 2015 at 00:30h. vergence and bold cells represent divergence between the southern and northern Groups). ......continued on the next page......continued on the next page Paratypes (2). The University of Texas at Arlington Amphibian collection numbers UTA A-65788 and UTA A-65492, adult males. Collected from near to the collection locality of the holotype, 4.76455ºN, 96.80138ºE, 1519 m a.s.l. (Fig. 3). Collected by Goutam C. Sarker, Irvan Sidik, Syaripudin and Muhammad Ikhsan on 8 August 2015 at 23:50h. Referred specimens (33). All juveniles, UTA A−65493−509 (17), and MZB.Amph.26016−031 (16), same col- lection information as the types. Etymology. The specific epithet is an adjective in Aceh language derived from Burni, meaning Mountain (Gunung in Indonesian) and Telong, meaning burning (Bakar in Indonesian), or in Sanskrit Borni TƏLoŋ, meaning “burning mountain”. This is the local name for the volcano that is the type-locality of this new species, and the Latin suffix – ensis, denoting place. Suggested Common Name. Burning Mountain Puppet Toad, in English; Kodok-wayang burnitelong, in Indonesian. Diagnosis. Sigalegalephrynus burnitelongensis sp. nov. can be diagnosed from its congeners by a unique combination of characters: (1) small-size (males 21.73–23.06 mm SVL); (2) lacking parotoid glands; (3) tympanum visible, with elevated annulus not encircled by sharply raised spinose tubercles; (4) naris closer to tip of snout than to eye; eye-naris distance 6.3% (8.3%, 6.9%) of SVL; naris-snout distance 1.1 % (1.2% 1%) of SVL, (5) fingertips truncated but not expanded (except finger I); (6) tips of toe I, II and III rounded, truncated but not expanded on toe IV and V; (7) rudimentary webbing in hands, moderate in feet; (8) dorsum brown without any marking; (9) medial dorsal dark band absent; (10) lacking alternate dark brown and white markings on upper lip, or not prominent; (11) flanks lacking stroke of different color; (12) dorsum lightly tuberculate, tubercles round; (13) venter pinkish–yellow, without maculation and uniformly tuberculate, (14) interocular distance 44% (43%) of head width; (15) nuptial pads dark brown, with black–tipped spicules; (16) finger IV tip not reaching distal phalangeal articulation of finger III (when adpressed); (17) inner metacarpal tubercle ¾ of outer metacarpal tubercle in length. Description of holotype and variation of paratypes (in parenthesis). Body moderately robust; head slightly longer than wide, HL/HW = 1.03 (1.10, 1.02); head length 32% (32%, 31%) of SVL; head width 31% (29%, 31%) of SVL; snout length 11% (10, 11%) of SVL; canthus rostralis concave; loreal area slightly tuberculate and concave; eye length 10% (9%, 10%) of SVL; pupil circular; snout truncate in dorsal view and protruding (slightly sloping back towards mouth) in lateral view; tympanum round with distinct annulus; interorbital space flat; cranial crests absent; no teeth in jaws; tongue tip oval shaped and longer than wide; skin of dorsal surfaces slightly rough to finely shagreen, with few large, scattered, round tubercles; most tubercles small, almost without keratinization; no dorsolateral, paravertebral, or occipital folds; skin on venter smoother, with very small and round tubercles; circumcloacal region golden yellow. Arms robust, with moderately developed axillary membrane; forearm length 27% (27%, 26%) of SVL; hand length 27% (24%, 26%) of SVL; relative length of fingers: I <II <IV <III; fingers bearing large expanded pads; webbing formula for hand: I11/2-2II11/2-23/4III23/4-22/3IV (I1-1II3-23/4III 21/2-2IV); skin of forearm with tubercles; finger I with elongate inner metacarpal tubercle, smaller than the outer metacarpal tubercle; each finger with one poorly developed round subarticular tubercle; nuptial pads brownish-dark, glandular, and dorsomedially extended with black keratinized spicules present at the base of finger I. Thigh length 44% (43%, 43%) of SVL; tibia length 41% (41%, 40%) of SVL; tarsal length 21% (21%, 24%) of SVL; foot length 41% (37%, 41%) of SVL; relative lengths of toes—I<II<III<V<IV; toes bearing large pads; feet with moderate webbing (Fig. 6A), webbing formula for the feet: I0-11/2II0-2III11/2-3IV3-2V (I1-11/2II2- 2III3-3IV2-11/2V); heels without tubercles; inner metatarsal tubercle moderately developed and elongate; outer metatarsal tubercle distinct; one moderate subarticular tubercle present at the base of first phalanx on each toe; toes with toe pads. Measurements (in mm). Holotype followed by paratypes in parenthesis. Finger III of right hand of paratype deformed, finger measurements of this specimen taken on left hand. SVL 22.18 (21.73, 23.06); HL 7.06 (6.96, 7.20); HW 6.84 (6.31, 7.04); SNL 2.40 (2.20, 2.45); ICD 3.70 (3.50, 3.80); IND 1.89 (1.91, 1.93); END 1.4 (1.80, 1.6); NSD 0.25 (0.26, 0.23); IOD 3.00 (3.10, 3.00); EL 2.20 (2.00, 2.25); TML 1.4 (1.45, 1.2); FAL 6.04 (5.90, 6.10); HAL 6.00 (5.30, 6.00); THL 9.70 (9.28, 9.82); TBL 9.09 (8.97, 9.24); TRL 4.55 (4.50, 5.51); FTL 9.00 (7.98, 9.34); OMCL 1.00 (1.00, 1.00); OMCW 1.00 (1.00, 1.00); IMCL 0.55 (0.50, 0.50); IMCW 0.75 (0.75, 0.75); IMTL 1.5(1.00, 0.90); IMTW 1.0(0.70, 0.80); F1L 0.80 (1.00, 1.00); F2L 1.60 (2.00, 2.00); F3L 3.15 (3.50, 3.50); F4L 2.10 (2.50, 2.50); T1L 1.00 (1.00, 1.00); T2L (1.40, 1.40); T3L 1.80 (2.00, 2.00); T4L 5.00 (4.00, 4.60); T5L 3.50 (3.0, 3.00); F3PD 0.90 (0.80, 1.00); F3PB 0.80 (0.60, 0.75). Color of holotype in life. Adult male holotype (Figs. 2A, 2B, 2C): dorsum predominantly light brown, lacking distinct markings; flanks brown, lacking oblique stripes; infraorbital part of maxilla with light-brown marking; lore light brown, with small dark-brown spot between orbit and naris; dorsum of limbs brown, lacking distinctive crossbar markings; moderately large white tubercles at posterior mandibular articulation; abdominal surface pink, with many yellow blotches; gular region, clavicular, and ventral surface of limbs pink, without yellow blotches; tips of fingers and toes blackish, with golden yellow blotches; iris golden yellow, with heavy black reticulations. Color of holotype in preservative. Differing slightly from that in life, pinkish coloration turned grey, and venter has turned whitish grey. Comparisons. Sigalegalephrynus burnitelongensis sp. nov. is restricted to Gunung Burni Telong, a volcano in Bener Meriah regency, Sumatra. Sigalegalephrynus burnitelongensis sp. nov. can be easily distinguished from all other congeners (including S. gayoluesensis sp. nov. from Gayo Lues Regency) by the lack of crossbar markings on the dorsal surface of the limbs. It differs from S. mandailinguensis, S. minangkabauensis and S. harveyi sp. nov. by its truncate (vs. mucronate) shaped snout in dorsal profile, stocky limbs (vs. lanky) smooth tubercles (vs. warty with sharp tips), and lacking an hourglass mark on the dorsum (vs. hourglass present). Distribution and natural history. Sigalegalephrynus burnitelongensis sp. nov. is known only from forest patches associated to small streams and surrounded by coffee plantations, at Gunung Burni Telong, near the village of Rambune in the province of Aceh, from 1519 m a.s.l. (Fig. 3). The holotype and paratype were found sitting on small leaves of shrubs 20 cm above ground. The holotype weighed 0.76 g, and the paratype 0.69 g. The smallest juvenile collected (UTA A-65505) was 9.6 mm in SVL and 0.06 g in weight.Published as part of Sarker, Goutam C., Wostl, Elijah, Thammachoti, Panupong, Sidik, Irvan, Hamidy, Amir, Kurniawan, Nia & Smith, Eric N., 2019, New species, diversity, systematics, and conservation assessment of the Puppet Toads of Sumatra (Anura: Bufonidae: Sigalegalephrynus), pp. 365-391 in Zootaxa 4679 (2) on pages 370-377, DOI: 10.11646/zootaxa.4679.2.9, http://zenodo.org/record/377264
Metagenomic dataset of flesh-footed shearwater (Ardenna carneipes)
No full textSource of sampling and extraction of DNA
A cutaneous tissue sample was collected from Flesh-footed Shearwater originating from Lord Howe Island, New South Wales, located approximately 500 km off the east coast of Australia during April 2015 (sample ID15-1527, GPS location: 32.53° S, 159.08° E). The sample was collected with the permission of the Lord Howe Island Board (permit no. LHIB 02/14) under the approval of the University of Tasmania and Charles Sturt University Animal Ethics Committees (permit no. A0010874, A0011586, and 09/046). The genomic DNA was isolated according to our previously established protocol (Sarker et al., 2017) using the Qiagen Blood and Tissue mini kit (Qiagen, Germany). The extracted DNA has been stored at -20 °C for further testing at Charles Sturt University.
Sequencing, assembly and annotation of complete mitogenome of A. carneipes
The library preparation and sequencing was performed as previously described (Sarker et al., 2017). Briefly, the paired-end library with an insert size of 150 bp was prepared using the Illumina paired-end sample preparation kit (Illumina, San Diego, CA) according to the manufacturer's instructions. Sequencing of the pooled DNA-library was performed on a HiSeq4000 sequencing platform (Illumina) according to the manufacturer’s instructions by Novogene, China. Sequencing data used in this study were analysed according to the previously established pipeline (Sarker et al., 2017; Sarker et al., 2019a; Sarker et al., 2019b) using Geneious (version 10.2.2, Biomatters, New Zealand) and CLC Genomics Workbench (version 9.5.4). Briefly, a total of 14.42 million reads with a read length of 150 bp was used to obtain the complete mitochondrial genome of A. carneipes
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