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Author Tay Boon Hui

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Development of an Effective Two-Step Enrichment Process to Enhance Bax System Detection of Healthy and Injured Salmonella Enteritidis in Liquid Whole Egg and Egg Yolk.

Shishi Huang, Tay Boon Hui, Hyun-Gyun Yuk, Qianwang Zheng,

ABSTRACT:The BAX system for pathogen detection has been highly accurate in a variety of food products. However, false-negative results have been reported for the detection of pathogens in liquid egg products because of failed pathogen resuscitation and the existence of inhibitory components. In this study, a short-time enrichment step was ... Read more >>

J. Food Prot. (Journal of food protection)
[2020, 83(3):397-404]

Cited: 0 times

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Lampreys, the jawless vertebrates, contain three Pax6 genes with distinct expression in eye, brain and pancreas.

Vydianathan Ravi, Shipra Bhatia, Prashant Shingate, Boon-Hui Tay, Byrappa Venkatesh, Dirk A Kleinjan,

The transcription factor Pax6 is crucial for the development of the central nervous system, eye, olfactory system and pancreas, and is implicated in human disease. While a single Pax6 gene exists in human and chicken, Pax6 occurs as a gene family in other vertebrates, with two members in elephant shark, ... Read more >>

Sci Rep (Scientific reports)
[2019, 9(1):19559]

Cited: 0 times

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Evolutionary Plasticity in Detoxification Gene Modules: The Preservation and Loss of the Pregnane X Receptor in Chondrichthyes Lineages.

Elza S S Fonseca, Raquel Ruivo, André M Machado, Francisca Conrado, Boon-Hui Tay, Byrappa Venkatesh, Miguel M Santos, L Filipe C Castro,

To appraise how evolutionary processes, such as gene duplication and loss, influence an organism's xenobiotic sensitivity is a critical question in toxicology. Of particular importance are gene families involved in the mediation of detoxification responses, such as members of the nuclear receptor subfamily 1 group I (NR1I), the pregnane X ... Read more >>

Int J Mol Sci (International journal of molecular sciences)
[2019, 20(9):]

Cited: 1 time

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Characterization of Gonadotropin-Releasing Hormone (GnRH) Genes From Cartilaginous Fish: Evolutionary Perspectives.

Anne-Laure Gaillard, Boon-Hui Tay, Daniela I Pérez Sirkin, Anne-Gaëlle Lafont, Céline De Flori, Paula G Vissio, Sylvie Mazan, Sylvie Dufour, Byrappa Venkatesh, Hervé Tostivint,

The neuropeptide gonadotropin-releasing hormone (GnRH) plays an important role in the control of reproductive functions. Vertebrates possess multiple GnRH forms that are classified into three main groups, namely GnRH1, GnRH2, and GnRH3. In order to gain more insights into the GnRH gene family in vertebrates, we sought to identify which ... Read more >>

Front Neurosci (Frontiers in neuroscience)
[2018, 12:607]

Cited: 0 times

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The Ancient Origins of Neural Substrates for Land Walking.

Heekyung Jung, Myungin Baek, Kristen P D'Elia, Catherine Boisvert, Peter D Currie, Boon-Hui Tay, Byrappa Venkatesh, Stuart M Brown, Adriana Heguy, David Schoppik, Jeremy S Dasen,

Walking is the predominant locomotor behavior expressed by land-dwelling vertebrates, but it is unknown when the neural circuits that are essential for limb control first appeared. Certain fish species display walking-like behaviors, raising the possibility that the underlying circuitry originated in primitive marine vertebrates. We show that the neural substrates ... Read more >>

Cell (Cell)
[2018, 172(4):667-682.e15]

Cited: 10 times

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Lampreys, the jawless vertebrates, contain only two ParaHox gene clusters.

Huixian Zhang, Vydianathan Ravi, Boon-Hui Tay, Sumanty Tohari, Nisha E Pillai, Aravind Prasad, Qiang Lin, Sydney Brenner, Byrappa Venkatesh,

ParaHox genes (Gsx, Pdx, and Cdx) are an ancient family of developmental genes closely related to the Hox genes. They play critical roles in the patterning of brain and gut. The basal chordate, amphioxus, contains a single ParaHox cluster comprising one member of each family, whereas nonteleost jawed vertebrates contain ... Read more >>

Proc. Natl. Acad. Sci. U.S.A. (Proceedings of the National Academy of Sciences of the United States of America)
[2017, 114(34):9146-9151]

Cited: 1 time

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Identification of three somatostatin genes in lampreys.

Hervé Tostivint, Agnès Dettaï, Feng B Quan, Vydianathan Ravi, Boon-Hui Tay, Maria Celina Rodicio, Sylvie Mazan, Byrappa Venkatesh, Natalia B Kenigfest,

Somatostatins (SSs) are a structurally diverse family of neuropeptides that play important roles in the regulation of growth, development and metabolism in vertebrates. It has been recently proposed that the common ancestor of gnathostomes possessed three SS genes, namely SS1, SS2 and SS5. SS1 and SS2 are still present in ... Read more >>

Gen. Comp. Endocrinol. (General and comparative endocrinology)
[2016, 237:89-97]

Cited: 1 time

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The genome of the largest bony fish, ocean sunfish (Mola mola), provides insights into its fast growth rate.

Hailin Pan, Hao Yu, Vydianathan Ravi, Cai Li, Alison P Lee, Michelle M Lian, Boon-Hui Tay, Sydney Brenner, Jian Wang, Huanming Yang, Guojie Zhang, Byrappa Venkatesh,

BACKGROUND:The ocean sunfish (Mola mola), which can grow up to a length of 2.7 m and weigh 2.3 tons, is the world's largest bony fish. It has an extremely fast growth rate and its endoskeleton is mainly composed of cartilage. Another unique feature of the sunfish is its lack of a ... Read more >>

Gigascience (GigaScience)
[2016, 5(1):36]

Cited: 5 times

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The p53-Mdm2 interaction and the E3 ligase activity of Mdm2/Mdm4 are conserved from lampreys to humans.

Cynthia R Coffill, Alison P Lee, Jia Wei Siau, Sharon M Chee, Thomas L Joseph, Yaw Sing Tan, Arumugam Madhumalar, Boon-Hui Tay, Sydney Brenner, Chandra S Verma, Farid J Ghadessy, Byrappa Venkatesh, David P Lane,

The extant jawless vertebrates, represented by lampreys and hagfish, are the oldest group of vertebrates and provide an interesting genomic evolutionary pivot point between invertebrates and jawed vertebrates. Through genome analysis of one of these jawless vertebrates, the Japanese lamprey (Lethenteron japonicum), we identified all three members of the important ... Read more >>

Genes Dev. (Genes & development)
[2016, 30(3):281-292]

Cited: 17 times

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The Asian arowana (Scleropages formosus) genome provides new insights into the evolution of an early lineage of teleosts.

Chao Bian, Yinchang Hu, Vydianathan Ravi, Inna S Kuznetsova, Xueyan Shen, Xidong Mu, Ying Sun, Xinxin You, Jia Li, Xiaofeng Li, Ying Qiu, Boon-Hui Tay, Natascha May Thevasagayam, Aleksey S Komissarov, Vladimir Trifonov, Marsel Kabilov, Alexey Tupikin, Jianren Luo, Yi Liu, Hongmei Song, Chao Liu, Xuejie Wang, Dangen Gu, Yexin Yang, Wujiao Li, Gianluca Polgar, Guangyi Fan, Peng Zeng, He Zhang, Zijun Xiong, Zhujing Tang, Chao Peng, Zhiqiang Ruan, Hui Yu, Jieming Chen, Mingjun Fan, Yu Huang, Min Wang, Xiaomeng Zhao, Guojun Hu, Huanming Yang, Jian Wang, Jun Wang, Xun Xu, Linsheng Song, Gangchun Xu, Pao Xu, Junmin Xu, Stephen J O'Brien, László Orbán, Byrappa Venkatesh, Qiong Shi,

The Asian arowana (Scleropages formosus), one of the world's most expensive cultivated ornamental fishes, is an endangered species. It represents an ancient lineage of teleosts: the Osteoglossomorpha. Here, we provide a high-quality chromosome-level reference genome of a female golden-variety arowana using a combination of deep shotgun sequencing and high-resolution linkage ... Read more >>

Sci Rep (Scientific reports)
[2016, 6:24501]

Cited: 25 times

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Cyclostomes Lack Clustered Protocadherins.

Vydianathan Ravi, Wei-Ping Yu, Nisha E Pillai, Michelle M Lian, Boon-Hui Tay, Sumanty Tohari, Sydney Brenner, Byrappa Venkatesh,

The brain, comprising billions of neurons and intricate neural networks, is arguably the most complex organ in vertebrates. The diversity of individual neurons is fundamental to the neuronal network complexity and the overall function of the vertebrate brain. In jawed vertebrates, clustered protocadherins provide the molecular basis for this neuronal ... Read more >>

Mol. Biol. Evol. (Molecular biology and evolution)
[2016, 33(2):311-315]

Cited: 4 times

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Early Evolution of Vertebrate Mybs: An Integrative Perspective Combining Synteny, Phylogenetic, and Gene Expression Analyses.

Emeline B Campanini, Michael W Vandewege, Nisha E Pillai, Boon-Hui Tay, Justin L Jones, Byrappa Venkatesh, Federico G Hoffmann,

The genes in the Myb superfamily encode for three related transcription factors in most vertebrates, A-, B-, and c-Myb, with functionally distinct roles, whereas most invertebrates have a single Myb. B-Myb plays an essential role in cell division and cell cycle progression, c-Myb is involved in hematopoiesis, and A-Myb is ... Read more >>

Genome Biol Evol (Genome biology and evolution)
[2015, 7(11):3009-3021]

Cited: 6 times

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Characterization of the Runx gene family in a jawless vertebrate, the Japanese lamprey (Lethenteron japonicum).

Giselle Sek Suan Nah, Boon-Hui Tay, Sydney Brenner, Motomi Osato, Byrappa Venkatesh,

The cyclostomes (jawless vertebrates), comprising lampreys and hagfishes, are the sister group of jawed vertebrates (gnathostomes) and are hence an important group for the study of vertebrate evolution. In mammals, three Runx genes, Runx1, Runx2 and Runx3, encode transcription factors that are essential for cell proliferation and differentiation in major ... Read more >>

PLoS ONE (PloS one)
[2014, 9(11):e113445]

Cited: 12 times

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Runx family genes in a cartilaginous fish, the elephant shark (Callorhinchus milii).

Giselle Sek Suan Nah, Zhi Wei Lim, Boon-Hui Tay, Motomi Osato, Byrappa Venkatesh,

The Runx family genes encode transcription factors that play key roles in hematopoiesis, skeletogenesis and neurogenesis and are often implicated in diseases. We describe here the cloning and characterization of Runx1, Runx2, Runx3 and Runxb genes in the elephant shark (Callorhinchus milii), a member of Chondrichthyes, the oldest living group ... Read more >>

PLoS ONE (PloS one)
[2014, 9(4):e93816]

Cited: 3 times

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Elephant shark genome provides unique insights into gnathostome evolution.

Byrappa Venkatesh, Alison P Lee, Vydianathan Ravi, Ashish K Maurya, Michelle M Lian, Jeremy B Swann, Yuko Ohta, Martin F Flajnik, Yoichi Sutoh, Masanori Kasahara, Shawn Hoon, Vamshidhar Gangu, Scott W Roy, Manuel Irimia, Vladimir Korzh, Igor Kondrychyn, Zhi Wei Lim, Boon-Hui Tay, Sumanty Tohari, Kiat Whye Kong, Shufen Ho, Belen Lorente-Galdos, Javier Quilez, Tomas Marques-Bonet, Brian J Raney, Philip W Ingham, Alice Tay, LaDeana W Hillier, Patrick Minx, Thomas Boehm, Richard K Wilson, Sydney Brenner, Wesley C Warren,

The emergence of jawed vertebrates (gnathostomes) from jawless vertebrates was accompanied by major morphological and physiological innovations, such as hinged jaws, paired fins and immunoglobulin-based adaptive immunity. Gnathostomes subsequently diverged into two groups, the cartilaginous fishes and the bony vertebrates. Here we report the whole-genome analysis of a cartilaginous fish, ... Read more >>

Nature (Nature)
[2014, 505(7482):174-179]

Cited: 252 times

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Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history.

L Filipe C Castro, Odete Gonçalves, Sylvie Mazan, Boon-Hui Tay, Byrappa Venkatesh, Jonathan M Wilson,

The stomach, a hallmark of gnathostome evolution, represents a unique anatomical innovation characterized by the presence of acid- and pepsin-secreting glands. However, the occurrence of these glands in gnathostome species is not universal; in the nineteenth century the French zoologist Cuvier first noted that some teleosts lacked a stomach. Strikingly, ... Read more >>

Proc. Biol. Sci. (Proceedings. Biological sciences)
[2014, 281(1775):20132669]

Cited: 19 times

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Evidence for at least six Hox clusters in the Japanese lamprey (Lethenteron japonicum).

Tarang K Mehta, Vydianathan Ravi, Shinichi Yamasaki, Alison P Lee, Michelle M Lian, Boon-Hui Tay, Sumanty Tohari, Seiji Yanai, Alice Tay, Sydney Brenner, Byrappa Venkatesh,

Cyclostomes, comprising jawless vertebrates such as lampreys and hagfishes, are the sister group of living jawed vertebrates (gnathostomes) and hence an important group for understanding the origin and diversity of vertebrates. In vertebrates and other metazoans, Hox genes determine cell fate along the anteroposterior axis of embryos and are implicated ... Read more >>

Proc. Natl. Acad. Sci. U.S.A. (Proceedings of the National Academy of Sciences of the United States of America)
[2013, 110(40):16044-16049]

Cited: 84 times

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Sequencing and analysis of full-length cDNAs, 5'-ESTs and 3'-ESTs from a cartilaginous fish, the elephant shark (Callorhinchus milii).

Yue Ying Tan, Rimantas Kodzius, Boon-Hui Tay, Alice Tay, Sydney Brenner, Byrappa Venkatesh,

Cartilaginous fishes are the most ancient group of living jawed vertebrates (gnathostomes) and are, therefore, an important reference group for understanding the evolution of vertebrates. The elephant shark (Callorhinchus milii), a holocephalan cartilaginous fish, has been identified as a model cartilaginous fish genome because of its compact genome (∼910 Mb) ... Read more >>

PLoS ONE (PloS one)
[2012, 7(10):e47174]

Cited: 7 times

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Sequencing of Pax6 loci from the elephant shark reveals a family of Pax6 genes in vertebrate genomes, forged by ancient duplications and divergences.

Vydianathan Ravi, Shipra Bhatia, Philippe Gautier, Felix Loosli, Boon-Hui Tay, Alice Tay, Emma Murdoch, Pedro Coutinho, Veronica van Heyningen, Sydney Brenner, Byrappa Venkatesh, Dirk A Kleinjan,

Pax6 is a developmental control gene essential for eye development throughout the animal kingdom. In addition, Pax6 plays key roles in other parts of the CNS, olfactory system, and pancreas. In mammals a single Pax6 gene encoding multiple isoforms delivers these pleiotropic functions. Here we provide evidence that the genomes ... Read more >>

PLoS Genet. (PLoS genetics)
[2013, 9(1):e1003177]

Cited: 28 times

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Evolution and functional characterisation of melanopsins in a deep-sea chimaera (elephant shark, Callorhinchus milii).

Wayne I L Davies, Boon-Hui Tay, Lei Zheng, Janine A Danks, Sydney Brenner, Russell G Foster, Shaun P Collin, Mark W Hankins, Byrappa Venkatesh, David M Hunt,

Non-visual photoreception in mammals is primarily mediated by two splice variants that derive from a single melanopsin (OPN4M) gene, whose expression is restricted to a subset of retinal ganglion cells. Physiologically, this sensory system regulates the photoentrainment of many biological rhythms, such as sleep via the melatonin endocrine system and ... Read more >>

PLoS ONE (PloS one)
[2012, 7(12):e51276]

Cited: 10 times

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Evolution of the Cdk-activator Speedy/RINGO in vertebrates.

Sangeeta Chauhan, Xinde Zheng, Yue Ying Tan, Boon-Hui Tay, Shuhui Lim, Byrappa Venkatesh, Philipp Kaldis,

Successful completion of the cell cycle relies on the precise activation and inactivation of cyclin-dependent kinases (Cdks) whose activity is mainly regulated by binding to cyclins. Recently, a new family of Cdk regulators termed Speedy/RINGO has been discovered, which can bind and activate Cdks but shares no apparent amino acid ... Read more >>

Cell. Mol. Life Sci. (Cellular and molecular life sciences : CMLS)
[2012, 69(22):3835-3850]

Cited: 6 times

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Conservation of all three p53 family members and Mdm2 and Mdm4 in the cartilaginous fish.

David P Lane, Arumugam Madhumalar, Alison P Lee, Boon-Hui Tay, Chandra Verma, Sydney Brenner, Byrappa Venkatesh,

Analysis of the genome of the elephant shark (Callorhinchus milii), a member of the cartilaginous fishes (Class Chondrichthyes), reveals that it encodes all three members of the p53 gene family, p53, p63 and p73, each with clear homology to the equivalent gene in bony vertebrates (Class Osteichthyes). Thus, the gene ... Read more >>

Cell Cycle (Cell cycle (Georgetown, Tex.))
[2011, 10(24):4272-4279]

Cited: 23 times

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Evolutionary origin and phylogeny of the modern holocephalans (Chondrichthyes: Chimaeriformes): a mitogenomic perspective.

Jun G Inoue, Masaki Miya, Kevin Lam, Boon-Hui Tay, Janine A Danks, Justin Bell, Terrence I Walker, Byrappa Venkatesh,

With our increasing ability for generating whole-genome sequences, comparative analysis of whole genomes has become a powerful tool for understanding the structure, function, and evolutionary history of human and other vertebrate genomes. By virtue of their position basal to bony vertebrates, cartilaginous fishes (class Chondrichthyes) are a valuable outgroup in ... Read more >>

Mol. Biol. Evol. (Molecular biology and evolution)
[2010, 27(11):2576-2586]

Cited: 72 times

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Functional conservation of a forebrain enhancer from the elephant shark (Callorhinchus milii ) in zebrafish and mice.

Ryan B MacDonald, Mélanie Debiais-Thibaud, Kyle Martin, Luc Poitras, Boon-Hui Tay, Byrappa Venkatesh, Marc Ekker,

The phylogenetic position of the elephant shark (Callorhinchus milii ) is particularly relevant to study the evolution of genes and gene regulation in vertebrates. Here we examine the evolution of Dlx homeobox gene regulation during vertebrate embryonic development with a particular focus on the forebrain. We first identified the elephant ... Read more >>

BMC Evol. Biol. (BMC evolutionary biology)
[2010, 10:157]

Cited: 9 times

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Parathyroid hormone gene family in a cartilaginous fish, the elephant shark (Callorhinchus milii).

Yang Liu, Alexander S Ibrahim, Boon-Hui Tay, Samantha J Richardson, Justin Bell, Terence I Walker, Sydney Brenner, Byrappa Venkatesh, Janine A Danks,

The development of bone was a major step in the evolution of vertebrates. A bony skeleton provided structural support and a calcium reservoir essential for the movement from an aquatic to a terrestrial environment. Cartilaginous fishes are the oldest living group of jawed vertebrates. In this study we have identified ... Read more >>

J. Bone Miner. Res. (Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research)
[2010, 25(12):2613-2623]

Cited: 8 times

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