Miracle-dz/UniFAR-FTUs huggingface dataset:
Sexual Dimorphism in Rissoides Pallidus (Giesbrecht) (Crustacea, Stomatopoda)

En Thirteen morphometric characters of Rissoides pallidus (Giesbrecht), a small stomatopod crustacean, were measured from 34 males and 32 females. The specimens were collected by means of bottom trawlers on the upper continental slope of the North Tyrrhenian Sea (mid-western Mediterranean Sea). Comparisons of the slopes between sexes indicated no significant difference in all studied dependent parameters (Y) with carapace length (X), except antennular length and scaphocerite width which were significantly longer and larger in females than in males, respectively. The hierarchical cluster analysis was also performed to identify similarity or dissimilarity among the morphometric characters measured. The biometric relationships considered in this work may prove useful during studies of feeding habits, and to reconstruct the size and biomass of the individuals of this small mantis shrimp from the remains of its exoskeleton. It Tredici caratteri morfometrici sono stati misurati in 34 maschi e 32 femmine di Rissoides pallidus (Giesbrecht), un piccolo crostaceo stomatopode. Gli esemplari sono stati raccolti per mezzo di motopescherecci che operano sulla scarpata continentale superiore del Mar Tirreno settentrionale (Mediterraneo occidentale). La comparazione del parametro b delle regressioni nei due sessi non ha mostrato alcuna differenza significativa tra tutti i parametri indagati, ad esclusione della lunghezza delle antennule e della larghezza dello scafocerite che rispettivamente sono risultati significativamente piu lunghe e piu larghe nelle femmine che nei maschi. E stata eseguita anche un’analisi di agglomerazione al fine di identificare similarita o dissimilarita tra i caratteri morfometrici utilizzati. Le relazioni biometriche considerate in questo lavoro possono risultare utili negli studi di alimentazione poiche dai resti degli individui di questo piccolo stomatopode e possibile risalire alla loro taglia e relativa biomassa.
Probing the mechanism of dihydrodipicolinate synthase

I List of abbreviations IV Acknowledgements VIII Chapter One: Introduction 1.1 Background 1 1.2 Biosynthesis of the aspartate family of amino acids 2 1.3 Dihydrodipicolinate synthase 2 1.3. 1 Genetic studies 2 1.3. 2 Structural studies of E. coli DHDPS 3 1.3. 3 Reaction mechanism catalysed by DHDPS 6 1.3. 4 Kinetic studies 8 1.3. 5 Regulation of DHDPS by (S)-lysine 9 1.3. 6 Related enzyme N-acetylneuraminate lyase (NAL) 10 1.4 Summary and aims of this project 11 1.5 References 12 Chapter Two: Purification and kinetic analysis of wild-type DHDPS 2.
Variants of infectious hematopoietic necrosis virus selected with glycoprotein-specific monoclonal antibodies

approved: Redacted for Privacy (John S. Rohovec The development of an effective infectious hematopoietic necrosis virus (IHNV) vaccine depends on a better understanding of the antigenic structure and variation among isolates. Three objectives to elucidate this were: (1) to generate a panel of antigenic derivatives of the IHNV glycoprotein by monoclonal antibody-mediated selection of neutralization-resistant variant viruses, (2) to determine if mutation in a critical site for viral neutralization affects viral virulence in vivo and characteristics in vitro, and (3) to establish an antigenic relationship between the Round Butte (RB) and 193-110 strains of IHNV. A single anti-glycoprotein monoclonal antibody, RB/B5, was used to select neutralization-resistant variants of the RB and 193-110 strains of IHNV. The virulence of the battery of IHNV variants was tested in rainbow trout by waterborne challenge. Two of these variants, RB-1 and 193-110-4. exhibited decreased virulence for the host. Vaccination with RB-1 and 193110-4 conferred protection to rainbow trout challenged with wild-type virus. Interference did not appear to be the mechanism for protection. In vitro, variants RB-1 and 193-110-4 retained several wild-type characteristics. Titers were normal. differences among the structural proteins were not detected. variants were not temperature-sensitive mutants. and variants were neutralized by hyperimmune serum. However, variant replication was slower than wild-type virus at permissive temperatures and as a result viral plaque size was smaller. Experiments with neutralizing and nonneutralizing monoclonal antibodies indicated that the RB and 193-110 strains have overlapping neutralization epitopes and share conserved sequences at a similar region on the IHNV glycoprotein. Variants of Infectious Hematopoietic Necrosis Virus Selected with Glycoprotein-specific Monoclonal Antibodies
Electrophoretic profile of bull sperm membrane proteins as a tool for selection of breeding bull

Proteins present in the seminal plasma and sperm influence sperm function and fertilization. The present study was carried out to characterize the electrophoretic profile of bull sperm membrane proteins and to correlate with bull fertility. Semen samples were collected from 20 breeding bulls (10 Jersey and 10 Jersey crossbred) and the sperm membrane proteins were extracted by Triton X. Heparin binding proteins were eluted with heparin column, and the molecular weight of the proteins was assessed by discontinuous sodium dodecyl sulphate polyacrylamide gel elecrophoresis (SDS- PAGE). To assess the field fertility of the bulls, 50 frozen semen straws/bull were used for insemination. Results indicated that only 50 % of the bulls screened had 28– 30 kDa heparin binding proteins in their sperm and these bulls had 12 % higher conception than the bulls lack the protein. So, it can be concluded that the bulls positive for of 28– 30 kDa heparin binding proteins in sperm membrane protein had higher chance of fertility and screening for its presence can be used as a tool in addition to routine criteria for selecting bulls.
Perancangan Aplikasi Penentu Rute Terpendek Perjalanan Wisata di Kabupaten Jember Menggunakan Algoritma Dijkstra

Pariwisata merupakan peranan penting bagi pertumbuhan ekonomi suatu daerah. Salah satu tujuan tenpat wisata di Jawa Timur tidak lain adalah Kabupaten Jember. Kabupaten Jember memiliki berbagai macam objek wisata, mulai dari wisata bahari, budaya, dan komersial. Oleh karena itu peneliti ingin membuat suatu perangkat lunak penentuan rute perjalanan wisata di Kabupaten Jember berbasis online yang dinamai Jember Guide, dan dapat digunakan sebagai alat bantu bagi para wisatawan untuk melakukan perjalanan wisata secara mudah. Aplikasi ini akan menghasilkan sistem penentu rute terdekat menuju objek wisata di Kabupaten Jember. Wisatawan akan memperoleh rute beserta lama waktu perjalanan, jarak, dan penunjuk arah jalan. Pembuatan aplikasi ini menggunakan pemograman Microsoft Visual Basic 2010 dan dibantu dengan Google Maps. Metode yang digunakan dalam perancangan aplikasi ini adalah algoritma Dijkstra yang berfungsi sebagai algoritma mencari jalur terdekat. Dalam uji coba akurasi penentuan waktu perjalanan, dilakukan perbandingan dengan menghitung secara manual menggunakan rumus Kinematika yaitu rumus mengukur Gerak Lurus Beraturan (GLB). Setelah melakukan uji coba perbandingan, peneliti mendapatkan hasil bahwa program menghasilkan waktu yang berbeda 4 menit dari perhitungan manual. Dalam aplikasi ini peneliti juga menyediakan daftar-daftar objek wisata yang sudah dibuka untuk umum oleh pemerintah Kabupaten Jember. Selain memberi daftar wisata, Aplikasi ini juga menampilkan foto lokasi wisata sehingga memudahkan wisatawan untuk memutuskan wisata mana yang lebih menarik untuk dikunjungi. Kata Kunci: Kabupaten Jember, Wisata, Dijkstra, Visual Basic. Google Maps.
Análisis de caractereres macroscópicos y microscópicos de Phaseolus Vulgaris (fabaceae, faboideae) silvestres y cultivados del noroeste argentino: una aplicación en arqueobotánica

Babot, M. del P.; N. Oliszewski & A. Grau. 2007. Analysis of macroscopic and microscopic characters of wild and cultivated varieties of Phaseolus vulgaris (Fabaceae, Faboideae) from northwestern Argentina. An archaeobotanical application. Darwiniana 45 (2): 149-162. Current criteria used for the characterization of Phaseolus vulgaris and its varieties have not pro- moted the taxonomic identification of archaeological specimens, because they focused on rarely pre- served characteres. This work analyzes variations within a broader set of cualitative and cuantitative characters of Phaseolus vulgaris, both macroscopic (seed) and microscopic (starch grain), with archaeobotanical relevance for northwestern Argentina. Diagnostic characters for Phaseolus vulgaris and the cultivated and wild varieties were identified.
Highbush Blackberry (Rubus argutus) Control in Bahiagrass (Paspalum notatum)

A 3-yr study investigated highbush blackberry control in bahiagrass turf using selective herbicides. Triclopyr applied alone at ≤ 0.56 kg/ha and in combination with other herbicides provided best (75 to 95%) control for up to 52 wk after treatment with minimal damage to bahiagrass turf. Triclopyr formulations (3A vs 4EC) provided similar highbush blackberry control and bahiagrass tolerance. The addition of either 2,4-D, dicamba, hexazinone, or sulfometuron to triclopyr provided slightly better blackberry control, but increased bahiagrass turf damage. Fluroxypyr applied at 0.14 to 0.28 kg/ha provided 60 to 80% control of highbush blackberry 12 WAT. Glyphosate and glufosinate treatments provided unacceptable highbush blackberry control and/or unacceptable bahiagrass turf injury. The addition of oxadiazon for residual control of subsequent highbush blackberry emergence was ineffective.
Potential targets for improving photosynthesis and crop yield

There has been considerable improvement in yield of many crops during the past fifty years. This has mainly been the result of empirical selection for yield per se. However, there is now some concern that both potential and actual yields are levelling-off at least in some important crops 1 - 3 . This is because genetic gains in yield are becoming harder to achieve. A physiological approach to yield improvement would help target the key constraints currently limiting yield. Since yield of a crop is a function of biomass x harvest index (HI), yield can be improved by increasing biomass or HI or both. In those crops where HI is low, selection for higher HI continues to be important. However, HI in many crops is approaching a ceiling value, therefore, in order to increase potential yield, crop biomass has to be increased, i.e. there will have to be more photosynthesis. Theoretically, there is considerable scope for improvement of solar energy utilization in photosynthesis. The means of achieving this through enhancing solar radiation interception, photosynthetic metabolism and source-sink balance have been discussed.
IN VITRO CULTURES AND CRYOPRESERVATION AS A TOOL FOR CONSERVING OF FRUIT SPECIES

Apple (Malus domestica Borkh.), pear (Pyrus communis L.), sour cherry (Prunus cerasus L.) and strawberry (Fragaria ananassa Duch.) are important fruit species in the Czech Republic. These species are susceptible to a number of diseases, which could damage field-grown materials. Cryopreservation of in vitro-grown shoot tips is a suitable option for the safe, long-term storage of germplasm of vegetatively propagated fruit species. Fifty genotypes of apple, pear, sour cherry and strawberry were successfully established in vitro and were micropropagated on Murashige and Skoog (MS) based media. The highest proliferation rate was obtained for pear cultivar ‘Koporecka’ that produced 5.2 new shoots per month on MS medium supplemented with 1 mg l BAP (6-benzylaminopurine). Survival of in vitro propagated pear, apple and sour cherry shoots and strawberries was evaluated after low temperature treatment. Cold hardening and preconditioning improved the recovery of cryopreserved shoot tips. A procedure based on the encapsulation-vitrification of samples has yielded particularly promising results, with a survival rate of 30% or more across a number of genotypes. Apple, pear, sour cherry and strawberry germplasm (50 genotypes) is now stored in the cryopreserved form in liquid nitrogen at –196°C.
Muscle creatine kinase (M-CK), aldolase A and voltage dependent anion channel 2 (VDAC2) as potential biomarkers for identification of electrically stimulated chicken muscle

Water bath stunning in commercial slaughter houses is a common practice and economical. However, the conditions applied for the stunning process may vary from one slaughterhouse to another and has opened up doors for food adulteration to take place. In this study, proteomics approaches have been used to study the effect of different current and voltages during stunning on the protein expression of the chickens. Protein profiles of the chickens muscle were constructed in order to detect any dufferences in protein expression and modifications. The protein muscle profiles of stunning conditions were compared to the non-stunned. After analysis using 2D Platinum ImageMaster 6.0 software and mass spectrometry identification, Muscle creatine kinase (M-CK), AldolaseA and Voltage Dependent Anion Channel 2 (VDAC2) were identified to be over expressed in the muscle sample of stunned chicken. The over expression of candidate proteins was confirmed at the transcriptional level of RNA expression by Real Time PCR. In conclusion, all three candidate proteins may serve as potential biomarkers for electrically stimulated chicken’s muscle. The existence of these biomarkers will help to monitor the slaughtering and stunning process in future.
The impact of mitochondria on preimplantation development in the rhesus macaque

THE IMPACT OF MITOCHONDRIA ON PREIMPLANTATION DEVELOPMENT IN THE RHESUS MACAQUE by TIFFINI C. GIBSON AUGUST 2010 Advisor: Carol Brenner, Ph.D. Major: Physiology Degree: Doctor of Philosophy Assisted Reproduction Technologies (ART) have been used to treat infertility since 1790. In the centuries following, dramatic advances have been made in the field of infertility research through the employment of a variety of species. Despite these advances, determination of oocyte and embryo quality remains largely subjective. Ascertainment of methods to measure oocyte and embryo quality to improve selection in ART clinics and increase pregnancy success rates is imperative. These methods are only possible with a more comprehensive understanding of the cellular and molecular properties of oocytes and preimplantation embryos. A key component of all cells, including oocytes and embryos, is the mitochondrion, which produces energy and maintains its own DNA for encoding proteins necessary for energy production. Defects in either the proteins responsible for energy production, the mitochondrial DNA (mtDNA) genome, or other contributing factors can lead to loss of oocyte competence and embryo quality. Human oocytes and embryos would be the optimal material to use for performing studies on preimplantation development. However, practical and ethical constraints prevent the use of human material for intensive, potentially terminal studies; thus, compelling researchers to find and use suitable animal models instead. The non-human primate (NHP) is the most befitting
Incorporating information on bottlenose dolphin distribution into marine protected area design

The steady growth of the whale-watching activities in the Azores and its concentration in a small area that partly overlaps the home range of a resident group of bottlenose dolphins (Tursiops truncatus) was one of the driving forces to proposing part of the range of this group as a marine protected area (MPA). Six years of data collected during boat surveys were used to investigate how dolphins used the candidate MPA (cMPA) and whether they showed any preference for the cMPA over adjacent areas. This work also estimated the fraction of the resident individuals and group's range included in the cMPA and examined whether there were any temporal changes in its use. Mean daily encounter rate of bottlenose dolphins was higher inside than outside the cMPA. Dolphin sightings inside the cMPA were nearly double what was predicted by the survey effort. Dolphins used the cMPA with similar intensity throughout the years. Resident dolphins were frequently sighted in the cMPA. However, less than 20% of the known range (650 km2) and 41% (39 km2) of the core area of the group lay within the cMPA. The reliability in the use of the cMPA over a 6-year period suggests its importance for the dolphin population remained relatively stable but its surface area was clearly insufficient to satisfy the spatial requirements of the resident group. Based on these findings, it was proposed to the Regional Government of the Azores to extend the boundaries of the cMPA. Accordingly, the modified protected area established in 2008 includes 100% of the core area of the resident group of bottlenose dolphins. This study provides an example of how information on cetacean habitat-use patterns may be used to design ecologically meaningful protected areas for this group. Copyright © 2011 John Wiley & Sons, Ltd.
UTILIZATION OF SDT-RT-PCR FOR PLANT VIRUS DETECTION

Metode simple-direct-tube (SDT) dikembangkan untuk preparasi RNA virus atau viroid, yang selanjutnya dipakai untuk sintesis cDNA. SDT tidak memerlukan penyaringan atau sentrifugasi seperi pada ekstraksi RNA total menggunakan KIT. Metode ini juga tidak menggunakan antiserum dalam preparasi RNA virus. Di samping itu metode SDT dapat dikerjakan di laboratorium dengan temperatur ruang dan selesai dikerjakan lebih kurang dalam 25 menit. Penerapan metode ini dilanjutkan dengan reverse transcription-polymerase chain reaction (RT-PCR), dapat mendeteksi keberadaan tomato chlorosis virus (ToCV), tomato infectious chlorosis virus (TICV), chrysanthemum virus B (CVB), Potyvirus and chrysanthemum stunt viroid (CSVd). Hal ini menunjukkan bahwa metode SDT dapat dipakai untuk mendeteksi virus atau viroid.
A pilot study on free-range laying hens' preference for four cultivated aromatic plants.

The objective of this pilot study was to determine freerange laying hens’ preference for four different cultivated aromatic plants. Twenty ISA Brown laying hens aged 50 weeks were used. Hens were given daily access to a pasture area enriched with Ocimum basilicum, Origanum vulgare, Petroselinum crispum and Anethum graveolens. Aromatic plants were cultivated in identical blocks allocated in the center of the pasture in random order. Quantitative observations, using scan sampling methods, were made in three consecutive days (days 1 to 3). The number of hens visiting each plant (cultivated area) throughout a 3hour period (9:00 – 12:00) was recorded. Within this period 19 observations spots per day were taken followed by 10-minute intervals. Hens were more frequently visiting the Ocimum basilicum area in comparison to the other plants areas (P<0.05) and this tense remained constant throughout the observation period. The mean percentage of hens visiting Ocimum basilicum was 21.2%, while percentage values for Origanum vulgare, Petroselinum crispum and Anethum graveolens were 5.2%, 9.9% and 5.5%, respectively. Hens’ clear preference for Ocimum basilicum suggests that this plant could be used in future research where its various properties can be studied further.
Floral mutants: Allele designations at the Lst and the A loci and the mapping of Sypl.

Pea flowers, like mos t zygomorphic flowers, possess a p rominen t corolla w i t h three pe ta l types, w h i c h are ar ranged along a dorsoventra l (DV) axis. In order to s tudy the genetic mechan i sm of floral zygomorphy in pea, screening for floral m u t a t i o n w a s carried ou t on material genera ted in t w o mutagenes is p rograms at the J o h n Innes Centre , INRA Versailles Cent re and SIPPE. Several floral m u t a n t s affecting the development of DV asymmetry were recovered and t w o m u t a n t s displaying deficiency in the development of organ in ternal ( IN) asymmetry were isolated. A m u t a t i o n at the LOBEDSTANDARD1(Lstl) (1) locus gives rise to the abnormal shape in the dorsal petals . lstl-1 (registered as JI 3021) w a s a spon taneous event in JI 321 found in 1985 (1). lstl-2 ( F N 3046/67) and lstl-3 (FN 3194/1343) were isolated in a fast n e u t r o n mutagenesis popu la t ion of JI 2822 in 2006 and found to be allelic in crosses to JI 3021. The m u t a t i o n at the KEELED WINGS (K) locus (2) is a classic marke r line for genetic analysis. T w o further lines were identified in the ge rmplasm collection as having the same pheno type were found to be allelic in crosses to JI 73 w h i c h carries the same m u t a t i o n as JI 17. k2 (JI 3260) arose by x-ray mutagenesis , and k-3 (JI 3261) w a s derived from fast neu t ron mutagenes is in JI 116 and JI 2296, respectively.
Genetic (in)stability in tomato

In the present study tomato lines carrying unstable alleles of the loci yv or sulfurea were characterized. In addition, we aimed at the isolation of an endogenous transposable element supposedly active in the unstable lines. Since the unstable loci were not cloned, we developed a transposon target system that enabled us to select for putative insertion mutants of the Adh-1 gene. While investigating the genetic characteristics of the Yv ms and Sulfurea line it became apparent that the instability of their marker loci was not necessarily related to the activity of transposition elements. Also, the instability could not be related to the activity of tomato sequences homologous to transposable elements from related species. This invited speculation about the stability of DNA sequences in tomato. It is proposed that mechanisms which are known to underlie genetic instability in other organisms, have a role in the unstable expression of yv and sulfurea . These alternative mechanisms have been summarized in Chapter 1. Chapter 2 describes the isolation of an EMS induced Adh-1 null mutant and its use in crosses with the unstable tomato lines. In the resulting F 1 populations additional Adh-1 null mutants were selected through the resistance of seeds or pollen grains to allyl alcohol (Chapter 4). The cloning of the entire Adh-1 gene allowed the molecular analysis of the Adh-1 null mutants (Chapter 3). Chapter 5 describes the cytogenetic and genetic characterization of the tomato line Yvms. 'Me characteristics of a newly isolated unstable allele of the sulfurea locus are presented in chapter 6. Finally, chapter 7 describes the hybridization of tomato DNA to alien transposable element probes. These experiments emphasize the stability of transposable element-like sequences in the tomato genome.
Transmission and Reception of Images via Visible Light

Communication by light or VLC by its acronym in English (Visible Light Communication), uses visible light from light emitting diodes (LEDs) to transmit information. Using a computing device and some hardware, the transmission of information is performed driving and modulating the light emitted by the LEDs. In the receiver side, the information carried by the modulated light is demodulated through a photo-detector, which is usually connected to a similar computing device for the final recovering of the information. In this article we describe an application based on VLC using OOK (On-Off Keying) modulation, to transmit color images from a RaspBerry Pi computer (using Python as the programming language), and several modules (LEDs and a sensor light) from LittleBits.