Advances in Biology http://www.hindawi.com The latest articles from Hindawi Publishing Corporation © 2014 , Hindawi Publishing Corporation . All rights reserved. DNA Barcoding on Bacteria: A Review Tue, 26 Aug 2014 12:36:21 +0000 http://www.hindawi.com/journals/ab/2014/541787/ Bacteria are omnipotent and they can be found everywhere. The study of bacterial pathogens has been happening from olden days to prevent epidemics, food spoilage, losses in agricultural production, and loss of lives. Modern techniques in DNA based species identification are considered. So, there is a need to acquire simple and quick identification technique. Hence, this review article covers the efficacy of DNA barcoding of bacteria. Routine DNA barcoding involves the production of PCR amplicons from particular regions to sequence them and these sequence data are used to identify or “barcode” that organism to make a distinction from other species. D. E. Lebonah, A. Dileep, K. Chandrasekhar, S. Sreevani, B. Sreedevi, and J. Pramoda Kumari Copyright © 2014 D.E. Lebonah et al. All rights reserved. Biological Treatment of Textile Effluent Using Candida zeylanoides and Saccharomyces cerevisiae Isolated from Soil Mon, 25 Aug 2014 06:03:31 +0000 http://www.hindawi.com/journals/ab/2014/670394/ This study evaluates the efficacy of yeasts isolated from soil in the treatment of textile wastewater. Two yeast species were isolated from soil; they were identified as Candida zeylanoides and Saccharomyces cerevisiae. The yeasts were inoculated into flask containing effluent and incubated for 15 days. Saccharomyces cerevisiae showed the most significant treatment capacity with a 66% reduction in BOD; this was followed closely by Candida zeylanoides with 57.3% reduction in BOD and a consortium of the two species showed the least remediation potential of 36.9%. The use of Saccharomyces cerevisiae and Candida zeylanoides in treatment of textile wastewater will help to limit the adverse environmental and health implications associated with disposal of untreated effluent into water bodies. O. P. Abioye, O. T. Mustapha, and S. A. Aransiola Copyright © 2014 O. P. Abioye et al. All rights reserved. In Silico Identification and Characterization of Potential Drug Targets in Bovine Herpes Virus 4, Causing Bovine Mastitis Thu, 07 Aug 2014 10:53:15 +0000 http://www.hindawi.com/journals/ab/2014/369213/ The purpose of this study is to deal with aetiology causing bovine mastitis; bovine herpes virus is also responsible for causing bovine mastitis but studies on viruses have been neglected as historical mastitis research has concentrated only on bacterial pathogens. Therefore, present study aims to make an in silico identification and characterization of potential drug targets in bovine herpes virus 4 by computational methods using various bioinformatics tools. In the current investigation 5 proteins of BoHV 4 were found to be nonhomologous to the host Bos taurus; these nonhomology proteins were believed to be inevitable proteins of BoHV 4 as they were specific to the virus; however 378 proteins were homologous to the host protein. The in silico physicochemical characterization of 5 proteins of BoHV 4 indicated that all the proteins of the virus were having more or less similar characteristics. Perhaps the knowledge of the present study may help in drug discovery which have high affinity to target site. Possible drug discovery to manage bovine mastitis with a help of bioinformatics tool is more significant and, specific and, reduces time and complications involved in clinical trials. Mahantesh M. Kurjogi and Basappa B. Kaliwal Copyright © 2014 Mahantesh M. Kurjogi and Basappa B. Kaliwal. All rights reserved. Effects of the Hormone Kisspeptin on Reproductive Hormone Release in Humans Tue, 05 Aug 2014 00:00:00 +0000 http://www.hindawi.com/journals/ab/2014/512650/ The kisspeptins are a family of neuropeptides which act as upstream stimulators of gonadotrophin releasing hormone (GnRH) neurons. Kisspeptin signalling is prerequisite to establishing the normal human reproductive phenotype; loss of function mutations in the KISS1 or KISS1R gene produces normosmic hypogonadotrophic hypogonadism in humans and mice, whilst increased activation of KISS1R causes precocious puberty. Administration of exogenous kisspeptin to human subjects stimulates an acute gonadotrophin rise. Serum kisspeptin levels also markedly increase during pregnancy. The identification of kisspeptin has been one of the biggest discoveries in the field of reproductive endocrinology, since the isolation and sequencing of GnRH in 1977, and has generated a novel research avenue which has received much attention over the past decade. This research has delineated many properties of the KISS1-KISS1R system, but there is still further work to do. Understanding kisspeptin’s role throughout our reproductive lifetime should help us better understand—and therefore treat—disorders of reproductive function. Promisingly, the current data supports the potential to develop kisspeptin based therapies. As an outlook article this paper focusses predominantly on our groups recent investigations into the effects of kisspeptin administration to humans and the potential therapeutic role of kisspeptin. Joanne L. Calley and Waljit S. Dhillo Copyright © 2014 Joanne L. Calley and Waljit S. Dhillo. All rights reserved. Identification and Expression of a Putative Facilitative Urea Transporter in Three Species of True Frogs (Ranidae): Implications for Terrestrial Adaptation Wed, 23 Jul 2014 09:38:15 +0000 http://www.hindawi.com/journals/ab/2014/148276/ Urea transporters (UTs) help mediate the transmembrane movement of urea and therefore are likely important in amphibian osmoregulation. Although UTs contribute to urea reabsorption in anuran excretory organs, little is known about the protein’s distribution and functions in other tissues, and their importance in the evolutionary adaptation of amphibians to their environment remains unclear. To address these questions, we obtained a partial sequence of a putative UT and examined relative abundance of this protein in tissues of the wood frog (Rana sylvatica), leopard frog (R. pipiens), and mink frog (R. septentrionalis), closely related species that are adapted to different habitats. Using immunoblotting techniques, we found the protein to be abundant in the osmoregulatory organs but also present in visceral organs, suggesting that UTs play both osmoregulatory and nonosmoregulatory roles in amphibians. UT abundance seems to relate to the species’ habitat preference, as levels of the protein were higher in the terrestrial R. sylvatica, intermediate in the semiaquatic R. pipiens, and quite low in the aquatic R. septentrionalis. These findings suggest that, in amphibians, UTs are involved in various physiological processes, including solute and water dynamics, and that they have played a role in adaptation to the osmotic challenges of terrestrial environments. Andrew J. Rosendale, Jon P. Costanzo, Andor J. Kiss, and Richard E. Lee Jr. Copyright © 2014 Andrew J. Rosendale et al. All rights reserved. Antiobesity and Hypolipidemic Activity of Moringa oleifera Leaves against High Fat Diet-Induced Obesity in Rats Thu, 10 Jul 2014 11:43:57 +0000 http://www.hindawi.com/journals/ab/2014/162914/ In the present study, the methanolic extract of Moringa oleifera leaves (MEMOL) was evaluated for antiobesity activity in rats. The antiobesity potential of MEMOL was studied against high fat diet-induced obesity (HFD) in rats. In this study, chronic administration of HFD in rats produced hypercholesterolemia (116.2 ± 0.27 mg/dL), which led to an increase in the body weight (225 gr), total cholesterol, triglycerides (263.0 ± 4.69 mg/dL), and attenuation in the levels of HDL (34.51 ± 2.20 mg/dL) as well as changes in body temperature of animals. Treatment of obese rats with MEMOL for 49 days resulted in a significant () change in body weight, total cholesterol, triglycerides, and LDL level along with a significant () increase in body temperature as compared to the HFD-induced obesity. MEMOL treated rats also showed a significant decrease in the level of liver biomarkers, organ weight, and blood glucose level. Further, rats treated with MEMOL (200 mg and 400 mg/kg) show reduced atherogenic index (1.7 ± 0.6 and 0.87 ± 0.76). The results indicate that the rats treated with Moringa oleifera (MO) have significantly attenuated the body weight without any change in the feed intake and also elicited significant thermogenic effect and to act as hypolipidemic and thermogenic property in obesity related disorders. Souravh Bais, Guru Sewak Singh, and Ramica Sharma Copyright © 2014 Souravh Bais et al. All rights reserved. The Basis of Muscle Regeneration Wed, 09 Jul 2014 07:24:13 +0000 http://www.hindawi.com/journals/ab/2014/612471/ Muscle regeneration recapitulates many aspects of embryonic myogenesis and is an important homeostatic process of the adult skeletal muscle, which, after development, retains the capacity to regenerate in response to appropriate stimuli, activating the muscle compartment of stem cells, namely, satellite cells, as well as other precursor cells. Moreover, significant evidence suggests that while stem cells represent an important determinant for tissue regeneration, a “qualified” environment is necessary to guarantee and achieve functional results. It is therefore plausible that the loss of control over these cell fate decisions could lead to a pathological transdifferentiation, leading to pathologic defects in the regenerative process. This review provides an overview about the general aspects of muscle development and discusses the cellular and molecular aspects that characterize the five interrelated and time-dependent phases of muscle regeneration, namely, degeneration, inflammation, regeneration, remodeling, and maturation/functional repair. Antonio Musarò Copyright © 2014 Antonio Musarò. All rights reserved. Advances in Human Biology: Combining Genetics and Molecular Biophysics to Pave the Way for Personalized Diagnostics and Medicine Mon, 07 Jul 2014 08:52:50 +0000 http://www.hindawi.com/journals/ab/2014/471836/ Advances in several biology-oriented initiatives such as genome sequencing and structural genomics, along with the progress made through traditional biological and biochemical research, have opened up a unique opportunity to better understand the molecular effects of human diseases. Human DNA can vary significantly from person to person and determines an individual’s physical characteristics and their susceptibility to diseases. Armed with an individual’s DNA sequence, researchers and physicians can check for defects known to be associated with certain diseases by utilizing various databases. However, for unclassified DNA mutations or in order to reveal molecular mechanism behind the effects, the mutations have to be mapped onto the corresponding networks and macromolecular structures and then analyzed to reveal their effect on the wild type properties of biological processes involved. Predicting the effect of DNA mutations on individual’s health is typically referred to as personalized or companion diagnostics. Furthermore, once the molecular mechanism of the mutations is revealed, the patient should be given drugs which are the most appropriate for the individual genome, referred to as pharmacogenomics. Altogether, the shift in focus in medicine towards more genomic-oriented practices is the foundation of personalized medicine. The progress made in these rapidly developing fields is outlined. Emil Alexov Copyright © 2014 Emil Alexov. All rights reserved. Importance of Biofilms in Urinary Tract Infections: New Therapeutic Approaches Wed, 02 Jul 2014 00:00:00 +0000 http://www.hindawi.com/journals/ab/2014/543974/ Bacterial biofilms play an important role in urinary tract infections (UTIs), being responsible for persistence infections causing relapses and acute prostatitis. Bacterial forming biofilm are difficult to eradicate due to the antimicrobial resistant phenotype that this structure confers being combined therapy recommended for the treatment of biofilm-associated infections. However, the presence of persistent cells showing reduced metabolism that leads to higher levels of antimicrobial resistance makes the search for new therapeutic tools necessary. Here, a review of these new therapeutic approaches is provided including catheters coated with hydrogels or antibiotics, nanoparticles, iontophoresis, biofilm enzyme inhibitors, liposomes, bacterial interference, bacteriophages, quorum sensing inhibitors, low-energy surface acoustic waves, and antiadhesion agents. In conclusion, new antimicrobial drugs that inhibit bacterial virulence and biofilm formation are needed. Sara M. Soto Copyright © 2014 Sara M. Soto. All rights reserved. Translational Research: From Biological Discovery to Public Benefit (or Not) Mon, 30 Jun 2014 11:03:24 +0000 http://www.hindawi.com/journals/ab/2014/278789/ Advances in biology are occurring at a breathtaking pace today, from genetic insights facilitated by the Human Genome Project and next generation DNA sequencing technologies, to global nucleic acid and proteomic expression measurement using new high-throughput methods. Less publicized in recent years, yet still the central driver of progress, are the steadily proceeding biological insights gained through tried and true hypothesis-driven investigation into the complex worlds of metabolism, growth, development, and regulation. Certainly, the basic science ecosystem is productive and this portends well for the myriad new applications that will benefit mankind; drugs, vaccines, devices, and related economic growth—or perhaps not—in stark contrast to the generation of fundamental biological knowledge are inefficiencies in applying this information to real-world problems, especially those of the clinic. While investigation hums along at light speed, translation often does not. The good news is that obstacles to progress are tractable. The bad news, however, is that these problems are difficult. The present paper examines translational research from multiple perspectives, beginning with a historical account and proceeding to the current state of the art. Included are descriptions of successes and challenges, along with conjecture on how the field may need to evolve in the future. Michael R. Emmert-Buck Copyright © 2014 Michael R. Emmert-Buck. All rights reserved. Cross Talk between Cellular Regulatory Networks Mediated by Shared Proteins Wed, 25 Jun 2014 06:08:21 +0000 http://www.hindawi.com/journals/ab/2014/274196/ Moonlighting proteins mediate cross talk between different pathways and cellular control networks. Sometimes, they even coordinate subsequent steps in the same pathway. For this Outlook paper we asked the question, which cellular processes employ multifunctional proteins (MFPs) and what makes them so attractive to cells and organisms. After reviewing their widespread occurrence, we will focus on higher eukaryotic model systems and on few examples that are linked to ongoing work in our laboratory. We will discuss the activities of transcription factor IIH (TFIIH), and its subcomplexes containing Xpd and Cdk7, and we will cover an aminoacyl-tRNA synthetase (LysRS) and DEAD box RNA helicases. Furthermore, we will analyze how cells are able to properly regulate the different biological activities of multifunctional proteins and which advantages such proteins offer to cells and organisms. Finally we also note that the proteins we discuss are linked to tumor formation or recruited by viruses that coopt the multifunctional protein for yet another purpose. Christine Dolde, Jiongming Lu, and Beat Suter Copyright © 2014 Christine Dolde et al. All rights reserved. Migrating into Genomics with the Neural Crest Sun, 22 Jun 2014 05:51:11 +0000 http://www.hindawi.com/journals/ab/2014/264069/ Neural crest cells are a fascinating embryonic cell type, unique to vertebrates, which arise within the central nervous system but emigrate soon after its formation and migrate to numerous and sometimes distant locations in the periphery. Following their migratory phase, they differentiate into diverse derivatives ranging from peripheral neurons and glia to skin melanocytes and craniofacial cartilage and bone. The molecular underpinnings underlying initial induction of prospective neural crest cells at the neural plate border to their migration and differentiation have been modeled in the form of a putative gene regulatory network. This review describes experiments performed in my laboratory in the past few years aimed to test and elaborate this gene regulatory network from both an embryonic and evolutionary perspective. The rapid advances in genomic technology in the last decade have greatly expanded our knowledge of important transcriptional inputs and epigenetic influences on neural crest development. The results reveal new players and new connections in the neural crest gene regulatory network and suggest that it has an ancient origin at the base of the vertebrate tree. Marianne E. Bronner Copyright © 2014 Marianne E. Bronner. All rights reserved. Effects of Sucrose and Other Additives on In Vitro Growth and Development of Purple Coneflower (Echinacea purpurea L.) Mon, 16 Jun 2014 12:49:13 +0000 http://www.hindawi.com/journals/ab/2014/402309/ Echinacea purpurea (purple coneflower) is being used for the preparation of more than 240 extracts, salves, and tinctures to help cure diseases like rabies, cold, and upper respiratory infections. Hence, efforts were made to develop a culture medium for successful in vitro culturing of cornflower and to regenerate buds and induce roots to enable mass propagation of selected clones. Of the three levels of sucrose tested as a supplement to MS media (Murashige and Skoog’s medium, 1962) 3% showed better rooting of buds and appeared morphologically normal and identical as compared to those grown at higher and lower concentrations (2 and 4%). The additives hydrolyzed lactabumin (0.0, 100, 300, and 900 mgL−1), peptone (0.0, 100, 300, and 900 mgL−1), and yeast (0.0, 100, 300, and 900 mgL−1) to media containing 0.3 mgL−1 BA (6-benzyladenine) and 0.01 mgL−1 NAA (naphthaleneacetic acid-plant growth regulators) has negatively influenced proliferation of shoots. The higher concentrations of the above have delayed the development of plantlets. Shoot multiplication was enhanced by coconut water with 2% being the best among 4 and 8% tested. Shoot organogenesis was not influenced by copper sulphate (0, 1.5, 3, 6, and 12 mgL−1) and silver nitrate (0.0, 0.5, 2.5, and 12.5 mgL−1) supplements and at higher concentrations of the above inhibited plant growth. Dahanayake Nilanthi and Yue-Sheng Yang Copyright © 2014 Dahanayake Nilanthi and Yue-Sheng Yang. All rights reserved. Evolutionary History of Terrestrial Pathogens and Endoparasites as Revealed in Fossils and Subfossils Thu, 12 Jun 2014 12:20:08 +0000 http://www.hindawi.com/journals/ab/2014/181353/ The present work uses fossils and subfossils to decipher the origin and evolution of terrestrial pathogens and endoparasites. Fossils, as interpreted by morphology or specific features of their hosts, furnish minimum dates for the origin of infectious agents, coevolution with hosts, and geographical locations. Subfossils, those that can be C14 dated (roughly under 50,000 years) and are identified by morphology as well as molecular and immunological techniques, provide time periods when humans became infected with various diseases. The pathogen groups surveyed include viruses, bacteria, protozoa, fungi, and select multicellular endoparasites including nematodes, trematodes, cestodes, and insect parasitoids in the terrestrial environment. George Poinar Jr. Copyright © 2014 George Poinar Jr. All rights reserved. Role of Orphan Nuclear Receptor DAX-1/NR0B1 in Development, Physiology, and Disease Tue, 20 May 2014 07:27:03 +0000 http://www.hindawi.com/journals/ab/2014/582749/ DAX-1/NR0B1 is an unusual orphan receptor that has a pivotal role in the development and function of steroidogenic tissues and of the reproductive axis. Recent studies have also indicated that this transcription factor has an important function in stem cell biology and in several types of cancer. Here I critically review the most important findings on the role of DAX-1 in development, physiology, and disease of endocrine tissues since the cloning of its gene twenty years ago. Enzo Lalli Copyright © 2014 Enzo Lalli. All rights reserved. The Role of TWIST in Angiogenesis and Cell Migration in Giant Cell Tumor of Bone Wed, 14 May 2014 11:29:27 +0000 http://www.hindawi.com/journals/ab/2014/903259/ Giant cell tumor of bone (GCT) is a bone tumor consisting of numerous multinucleated osteoclastic giant cells involved in bone resorption and neoplastic osteoblast-like stromal cells responsible for tumor growth. The tumor occasionally metastasizes to the lung; however, factors leading to metastasis in this tumor are unknown. The TWIST-1 protein (also referred to as TWIST) has been suggested to be involved in epithelial-mesenchymal transition (EMT) and tumor progression in some cancers. In this study we investigated the functional role of TWIST in GCT cell angiogenesis and migration. Overexpression of TWIST in neoplastic GCT stromal cells significantly increased mRNA and protein expression of VEGF and VEGFR1 in vitro, whereas knockdown of TWIST resulted in decreased VEGF and VEGFR1 expression. A stable cell line with TWIST overexpression resulted in features of EMT including increased cell migration and downregulation of E-cadherin. The results of our study indicate that TWIST may play an important role in angiogenesis and cell migration in GCT. Shalini Singh, Isabella W. Y. Mak, Divya Handa, and Michelle Ghert Copyright © 2014 Shalini Singh et al. All rights reserved. The Role of the Actin Cytoskeleton and Lipid Rafts in the Localization and Function of the ABCC1 Transporter Mon, 05 May 2014 06:40:20 +0000 http://www.hindawi.com/journals/ab/2014/105898/ ATP-binding cassette (ABC) transporters are known to be important factors in multidrug resistance of tumor cells. Lipid rafts have been implicated in their localization in the plasma membrane, where they function as drug efflux pumps. This specific localization in rafts may support the activity of ABC/Abc transporters. This raises questions regarding the nature and composition of the lipid rafts that harbor ABC/Abc transporters and the dependence of ABC/Abc transporters—concerning their localization and activity—on lipid raft constituents. Here we review our work of the past 10 years aimed at evaluating whether ABC/Abc transporters are dependent on a particular membrane environment for their function. What is the nature of this membrane environment and which of the lipid raft constituents are important for this dependency? It turns out that cortical actin is of major importance for stabilizing the localization and function of the ABC/Abc transporter, provided it is localized in an actin-dependent subtype of lipid rafts, as is the case for human ABCC1/multidrug resistance-related protein 1 (MRP1) and rodent Abcc1/Mrp1 but not human ABCB1/P-glycoprotein (PGP). On the other hand, sphingolipids do not appear to be modulators of ABCC1/MRP1 (or Abcc1/Mrp1), even though they are coregulated during drug resistance development. Jan Willem Kok, Karin Klappe, and Ina Hummel Copyright © 2014 Jan Willem Kok et al. All rights reserved. The Biosynthesis of the Molybdenum Cofactor in Escherichia coli and Its Connection to FeS Cluster Assembly and the Thiolation of tRNA Tue, 29 Apr 2014 07:24:15 +0000 http://www.hindawi.com/journals/ab/2014/808569/ The thiolation of biomolecules is a complex process that involves the activation of sulfur. The L-cysteine desulfurase IscS is the main sulfur mobilizing protein in Escherichia coli that provides the sulfur from L-cysteine to several important biomolecules in the cell such as iron sulfur (FeS) clusters, molybdopterin (MPT), thiamine, and thionucleosides of tRNA. Various proteins mediate the transfer of sulfur from IscS to various biomolecules using different interaction partners. A direct connection between the sulfur-containing molecules FeS clusters, thiolated tRNA, and the molybdenum cofactor (Moco) has been identified. The first step of Moco biosynthesis involves the conversion of 5′GTP to cyclic pyranopterin monophosphate (cPMP), a reaction catalyzed by a FeS cluster containing protein. Formed cPMP is further converted to MPT by insertion of two sulfur atoms. The sulfur for this reaction is provided by the L-cysteine desulfurase IscS in addition to the involvement of the TusA protein. TusA is also involved in the sulfur transfer for the thiolation of tRNA. This review will describe the biosynthesis of Moco in E. coli in detail and dissects the sulfur transfer pathways for Moco and tRNA and their connection to FeS cluster biosynthesis. Silke Leimkühler Copyright © 2014 Silke Leimkühler. All rights reserved. Colorful World of Microbes: Carotenoids and Their Applications Sun, 13 Apr 2014 12:18:04 +0000 http://www.hindawi.com/journals/ab/2014/837891/ Microbial cells accumulate pigments under certain culture conditions, which have very important industrial applications. Microorganisms can serve as sources of carotenoids, the most widespread group of naturally occurring pigments. More than 750 structurally different yellow, orange, and red colored molecules are found in both eukaryotes and prokaryotes with an estimated market of $ 919 million by 2015. Carotenoids protect cells against photooxidative damage and hence found important applications in environment, food and nutrition, disease control, and as potent antimicrobial agents. In addition to many research advances, this paper reviews concerns with recent evaluations, applications of microbial pigments, and recommendations for future researches with an understanding of evolution and biosynthetic pathways along with other relevant aspects. Kushwaha Kirti, Saini Amita, Saraswat Priti, Agarwal Mukesh Kumar, and Saxena Jyoti Copyright © 2014 Kushwaha Kirti et al. All rights reserved. The Brain Derived Neurotrophic Factor and Personality Thu, 27 Mar 2014 07:30:23 +0000 http://www.hindawi.com/journals/ab/2014/719723/ The study of the biological basis of personality is a timely research endeavor, with the aim of deepening our understanding of human nature. In recent years, a growing body of research has investigated the role of the brain derived neurotrophic factor (BDNF) in the context of individual differences across human beings, with a focus on personality traits. A large number of different approaches have been chosen to illuminate the role of BDNF for personality, ranging from the measurement of BDNF in the serum/plasma to molecular genetics to (genetic) brain imaging. The present review provides the reader with an overview of the current state of affairs in the context of BDNF and personality. Christian Montag Copyright © 2014 Christian Montag. All rights reserved.