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Готові списки джерел за темами / Functional conservation / Статті в журналах

Статті в журналах з теми "Functional conservation"

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Автор: Grafiati

Опубліковано: 10 грудня 2022

Оновлено: 28 січня 2023

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1

G$aacute$l, Tam$aacute$s. "Functional differentiation under conservation constraints." Journal of Physics A: Mathematical and General 35, no. 28 (July 5, 2002): 5899–905. http://dx.doi.org/10.1088/0305-4470/35/28/309.

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2

Gál, Tamás. "Functional differentiation under simultaneous conservation constraints." Journal of Physics A: Mathematical and Theoretical 40, no. 9 (February 14, 2007): 2045–52. http://dx.doi.org/10.1088/1751-8113/40/9/010.

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3

Dolinski, Kara, and David Botstein. "Orthology and Functional Conservation in Eukaryotes." Annual Review of Genetics 41, no. 1 (December 2007): 465–507. http://dx.doi.org/10.1146/annurev.genet.40.110405.090439.

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4

Pennacchio, Len A., and Axel Visel. "Limits of sequence and functional conservation." Nature Genetics 42, no. 7 (July 2010): 557–58. http://dx.doi.org/10.1038/ng0710-557.

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5

Rosenfeld, Jordan S. "Functional redundancy in ecology and conservation." Oikos 98, no. 1 (July 2002): 156–62. http://dx.doi.org/10.1034/j.1600-0706.2002.980116.x.

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6

Rodini, Elizabeth. "Functional Jewels." Art Institute of Chicago Museum Studies 25, no. 2 (2000): 76. http://dx.doi.org/10.2307/4113065.

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7

Rud, Daniel, Paul Marjoram, Kimberly Siegmund, and Darryl Shibata. "Functional human genes typically exhibit epigenetic conservation." PLOS ONE 16, no. 9 (September 14, 2021): e0253250. http://dx.doi.org/10.1371/journal.pone.0253250.

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Анотація:

Recent DepMap CRISPR-Cas9 single gene disruptions have identified genes more essential to proliferation in tissue culture. It would be valuable to translate these finding with measurements more practical for human tissues. Here we show that DepMap essential genes and other literature curated functional genes exhibit cell-specific preferential epigenetic conservation when DNA methylation measurements are compared between replicate cell lines and between intestinal crypts from the same individual. Culture experiments indicate that epigenetic drift accumulates through time with smaller differences in more functional genes. In NCI-60 cell lines, greater targeted gene conservation correlated with greater drug sensitivity. These studies indicate that two measurements separated in time allow normal or neoplastic cells to signal through conservation which human genes are more essential to their survival in vitro or in vivo.

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8

Paffett-Lugassy, Noëlle, Nelson Hsia, Paula G. Fraenkel, Barry Paw, Irene Leshinsky, Bruce Barut, Nathan Bahary, Jaime Caro, Robert Handin, and Leonard I. Zon. "Functional conservation of erythropoietin signaling in zebrafish." Blood 110, no. 7 (October 1, 2007): 2718–26. http://dx.doi.org/10.1182/blood-2006-04-016535.

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Erythropoietin (Epo) and its cognate receptor (EpoR) are required for maintaining adequate levels of circulating erythrocytes during embryogenesis and adulthood. Here, we report the functional characterization of the zebrafish epo and epor genes. The expression of epo and epor was evaluated by quantitative reverse transcriptase–polymerase chain reaction (RT-PCR) and whole-mount in situ hybridization, revealing marked parallels between zebrafish and mammalian gene expression patterns. Examination of the hypochromic mutant, weissherbst, and adult hypoxia-treated hearts indicate that zebrafish epo expression is induced by anemia and hypoxia. Overexpression of epo mRNA resulted in severe polycythemia, characterized by a striking increase in the number of cells expressing scl, c-myb, gata1, ikaros, epor, and βe1-globin, suggesting that both the erythroid progenitor and mature erythrocyte compartments respond to epo. Morpholino-mediated knockdown of the epor caused a slight decrease in primitive and complete block of definitive erythropoiesis. Abrogation of STAT5 blocked the erythropoietic expansion by epo mRNA, consistent with a requirement for STAT5 in epo signaling. Together, the characterization of zebrafish epo and epor demonstrates the conservation of an ancient program that ensures proper red blood cell numbers during normal homeostasis and under hypoxic conditions.

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9

Colombo, Rinaldo M., and Graziano Guerra. "On the stability functional for conservation laws." Nonlinear Analysis: Theory, Methods & Applications 69, no. 5-6 (September 2008): 1581–98. http://dx.doi.org/10.1016/j.na.2007.07.012.

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10

Kunkler, J., W. Jack, C. Tyler, U. Chetty, J. Dixon, G. Kerr, A. Rodger, and L. Matheson. "306Structural and functional changes after conservation therapy." Radiotherapy and Oncology 40 (January 1996): S80. http://dx.doi.org/10.1016/s0167-8140(96)80315-x.

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11

Hoelzel, A. Rus, Michael W. Bruford, and Robert C. Fleischer. "Conservation of adaptive potential and functional diversity." Conservation Genetics 20, no. 1 (February 2019): 1–5. http://dx.doi.org/10.1007/s10592-019-01151-x.

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12

Bolochio, Bruna E., Julián N. Lescano, Javier Maximiliano Cordier, Rafael Loyola, and Javier Nori. "A functional perspective for global amphibian conservation." Biological Conservation 245 (May 2020): 108572. http://dx.doi.org/10.1016/j.biocon.2020.108572.

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13

Begg, Graham S., Samantha M. Cook, Richard Dye, Marco Ferrante, Pierre Franck, Claire Lavigne, Gábor L. Lövei, et al. "A functional overview of conservation biological control." Crop Protection 97 (July 2017): 145–58. http://dx.doi.org/10.1016/j.cropro.2016.11.008.

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14

Navazio, Lorella, Maria C. Nardi, Simonetta Pancaldi, Paola Dainese, Barbara Baldan, Anne-Catherine Fitchette-Lainé, Loïc Faye, Flavio Meggio, Paola Mariani, and WILLIAM MARTIN. "Functional Conservation of Calreticulin in Euglena gracilis." Journal of Eukaryotic Microbiology 45, no. 3 (May 1998): 307–13. http://dx.doi.org/10.1111/j.1550-7408.1998.tb04541.x.

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15

de las Heras, Daniel, Joseph M. Brader, Andrea Fortini, and Matthias Schmidt. "Particle conservation in dynamical density functional theory." Journal of Physics: Condensed Matter 28, no. 24 (April 26, 2016): 244024. http://dx.doi.org/10.1088/0953-8984/28/24/244024.

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16

Bianchini, Stefano, and Stefano Modena. "On a quadratic functional for scalar conservation laws." Journal of Hyperbolic Differential Equations 11, no. 02 (June 2014): 355–435. http://dx.doi.org/10.1142/s0219891614500118.

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Анотація:

We prove a quadratic interaction estimate for approximate solutions to scalar conservation laws obtained by the wavefront tracking approximation or the Glimm scheme. This quadratic estimate has been used in the literature to prove the convergence rate of the Glimm scheme. The proof is based on the introduction of a quadratic functional 𝔔(t), decreasing at every interaction, and such that its total variation in time is bounded. Differently from other interaction potentials present in the literature, the form of this functional is the natural extension of the original Glimm functional, and coincides with it in the genuinely nonlinear case.

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17

Ashton, John, and David Hallam. "THE CONSERVATION OF FUNCTIONAL OBJECTS—AN ETHICAL DILEMMA." AICCM Bulletin 16, no. 3 (January 1990): 19–26. http://dx.doi.org/10.1179/bac.1990.16.3.003.

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18

Vucetic, S., B. Miljevic, O. Sovljanski, J. M. van der Bergh, S. Markov, H. Hirsenberger, M. Tzoutzouli Malesevic, and J. Ranogajec. "Functional mortars for conservation of cultural heritage structures." IOP Conference Series: Materials Science and Engineering 949 (November 11, 2020): 012091. http://dx.doi.org/10.1088/1757-899x/949/1/012091.

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19

Li, Qing, Chao Fang, Zongbiao Duan, Yucheng Liu, Hao Qin, Jixiang Zhang, Peng Sun, Wenbin Li, Guodong Wang, and Zhixi Tian. "Functional conservation and divergence ofGmCHLIgenes in polyploid soybean." Plant Journal 88, no. 4 (September 17, 2016): 584–96. http://dx.doi.org/10.1111/tpj.13282.

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20

Gál, Tamás. "The mathematics of functional differentiation under conservation constraint." Journal of Mathematical Chemistry 42, no. 3 (January 23, 2007): 661–76. http://dx.doi.org/10.1007/s10910-006-9216-4.

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21

Nelson, Nathan. "Structural conservation and functional diversity of V-ATPases." Journal of Bioenergetics and Biomembranes 24, no. 4 (August 1992): 407–14. http://dx.doi.org/10.1007/bf00762533.

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22

LACROIX, DENIS, and GUILLAUME HUPIN. "DENSITY FUNCTIONAL FOR PAIRING WITH PARTICLE NUMBER CONSERVATION." Modern Physics Letters A 25, no. 21n23 (July 30, 2010): 1854–57. http://dx.doi.org/10.1142/s0217732310000484.

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Анотація:

In this work, a new functional is introduced to treat pairing correlations in finite many-body systems. Guided by the projected BCS framework, the energy is written as a functional of occupation numbers. It is shown to generalize the BCS approach and to provide an alternative to Variation After Projection framework. Illustrations of the new approach are given for the pairing Hamiltonian for various particle numbers and coupling strengths. In all case, a very good agreement with the exact solution is found.

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23

Kraman, Matthew, and Brent McCright. "Functional conservation of Notch1 and Notch2 intracellular domains." FASEB Journal 19, no. 10 (May 16, 2005): 1311–13. http://dx.doi.org/10.1096/fj.04-3407fje.

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24

Li, Qi, Ye Wang, Fuxiang Wang, Yuyu Guo, Xueqing Duan, Jinhao Sun, and Hailong An. "Functional conservation and diversification ofAPETALA1/FRUITFULLgenes inBrachypodium distachyon." Physiologia Plantarum 157, no. 4 (March 23, 2016): 507–18. http://dx.doi.org/10.1111/ppl.12427.

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25

Wellnitz, Todd, and N. LeRoy Poff. "Functional redundancy in heterogeneous environments: implications for conservation." Ecology Letters 4, no. 3 (May 30, 2001): 177–79. http://dx.doi.org/10.1046/j.1461-0248.2001.00221.x.

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26

Sunkel, C. "The elusive centromere: sequence divergence and functional conservation." Current Opinion in Genetics & Development 5, no. 6 (December 1995): 756–67. http://dx.doi.org/10.1016/0959-437x(95)80008-s.

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27

Kato, Hisamune, Takashi Sakai, Kumiko Tamura, Shigeru Minoguchi, Yasuaki Shirayoshi, Yoshio Hamada, Yoshihide Tsujimoto, and Tasuku Honjo. "Functional conservation of mouse Notch receptor family members." FEBS Letters 395, no. 2-3 (October 21, 1996): 221–24. http://dx.doi.org/10.1016/0014-5793(96)01046-0.

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28

Trofimov, Vyacheslav A., and Nikolai Peskov. "COMPARISON OF FINITE‐DIFFERENCE SCHEMES FOR THE GROSS‐PITAEVSKII EQUATION." Mathematical Modelling and Analysis 14, no. 1 (March 31, 2009): 109–26. http://dx.doi.org/10.3846/1392-6292.2009.14.109-126.

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Анотація:

A conservative finite‐difference scheme for numerical solution of the Gross‐Pitaevskii equation is proposed. The scheme preserves three invariants of the problem: the L 2 norm of the solution, the impulse functional, and the energy functional. The advantages of the scheme are demonstrated via several numerical examples in comparison with some other well‐known and widely used methods. The paper is organized as follows. In Section 2 we consider three main conservation laws of GPE and derive the evolution equations for first and second moments of a solution of GPE. In Section 3 we define the conservative finite‐difference scheme and prove the discrete analogs of conservation laws. The remainder of Section 3 consists of a brief description of other finite‐difference schemes, which will be compared with the conservative scheme. Section 4 presents the results of numerical solutions of three typical problems related to GPE, obtained by different methods. Comparison of the results confirms the advantages of conservative scheme. And finally we summarize our conclusions in Section 5.

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29

Brennan, A., R. Naidoo, L. Greenstreet, Z. Mehrabi, N. Ramankutty, and C. Kremen. "Functional connectivity of the world’s protected areas." Science 376, no. 6597 (June 3, 2022): 1101–4. http://dx.doi.org/10.1126/science.abl8974.

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Global policies call for connecting protected areas (PAs) to conserve the flow of animals and genes across changing landscapes, yet whether global PA networks currently support animal movement—and where connectivity conservation is most critical—remain largely unknown. In this study, we map the functional connectivity of the world’s terrestrial PAs and quantify national PA connectivity through the lens of moving mammals. We find that mitigating the human footprint may improve connectivity more than adding new PAs, although both strategies together maximize benefits. The most globally important areas of concentrated mammal movement remain unprotected, with 71% of these overlapping with global biodiversity priority areas and 6% occurring on land with moderate to high human modification. Conservation and restoration of critical connectivity areas could safeguard PA connectivity while supporting other global conservation priorities.

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30

Freitas, J. R., and W. Mantovani. "An overview of the applicability of functional diversity in Biological Conservation." Brazilian Journal of Biology 78, no. 3 (October 23, 2017): 517–24. http://dx.doi.org/10.1590/1519-6984.09416.

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Abstract Functional diversity is increasingly pointed as a useful approach to reach Biological Conservation goals. Here, we provide an overview of the functional diversity approach status in the Biological Conservation field. We sought for peer-reviewed papers published over a period of twenty years (from 1994 to 2014). First we used the general topic “functional diversity” and then refined our search using the key-word “conservation”. We have identified the conservation strategies addressed, the organism studied, and the continent of study site in each paper. Thirteen classes of conservation strategies were identified. Plants were the most commonly studied organism group and most study-sites were located in Europe. The functional diversity approach was introduced in the Biological Conservation field in the early 2000’s and its inclusion in conservation strategies is broadly advised. However, the number of papers that operationalise such inclusion by developing models and systems is still low. Functional diversity responds differently and eventually better than other measures to changes in land use and management, which suggests that this approach can potentially better predict the impacts. More studies are needed to corroborate this hypothesis. We pointed out knowledge gaps regarding identification of the responses for functional diversity about urban impacts and in research on the level of management intensity of land needed to maintain functional diversity. We recommend the use of functional diversity measures to find ecological indicators. Future studies should focus on the development of functional diversity measures of other taxa beyond plants as well as test hypothesis in tropical ecosystems.

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31

Dodd, Cameron S., and Catherine E. Grueber. "Functional Diversity within Gut Microbiomes: Implications for Conserving Biodiversity." Conservation 1, no. 4 (October 25, 2021): 311–26. http://dx.doi.org/10.3390/conservation1040024.

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Анотація:

Conservation research has historically been conducted at the macro level, focusing on animals and plants and their role in the wider ecosystem. However, there is a growing appreciation of the importance of microbial communities in conservation. Most microbiome research in conservation thus far has used amplicon sequencing methods to assess the taxonomic composition of microbial communities and inferred functional capabilities from these data. However, as manipulation of the microbiome as a conservation tool becomes more and more feasible, there is a growing need to understand the direct functional consequences of shifts in microbiome composition. This review outlines the latest advances in microbiome research from a functional perspective and how these data can be used to inform conservation strategies. This review will also consider some of the challenges faced when studying the microbiomes of wild animals and how they can be overcome by careful study design and sampling methods. Environmental changes brought about by climate change or direct human actions have the potential to alter the taxonomic composition of microbiomes in wild populations. Understanding how taxonomic shifts affect the function of microbial communities is important for identifying species most threatened by potential disruption to their microbiome. Preservation or even restoration of these functions has the potential to be a powerful tool in conservation biology and a shift towards functional characterisation of gut microbiome diversity will be an important first step.

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32

Fang, Chun, Tamotsu Noguchi, and Hayato Yamana. "Analysis of evolutionary conservation patterns and their influence on identifying protein functional sites." Journal of Bioinformatics and Computational Biology 12, no. 05 (October 2014): 1440003. http://dx.doi.org/10.1142/s0219720014400034.

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Анотація:

Evolutionary conservation information included in position-specific scoring matrix (PSSM) has been widely adopted by sequence-based methods for identifying protein functional sites, because all functional sites, whether in ordered or disordered proteins, are found to be conserved at some extent. However, different functional sites have different conservation patterns, some of them are linear contextual, some of them are mingled with highly variable residues, and some others seem to be conserved independently. Every value in PSSMs is calculated independently of each other, without carrying the contextual information of residues in the sequence. Therefore, adopting the direct output of PSSM for prediction fails to consider the relationship between conservation patterns of residues and the distribution of conservation scores in PSSMs. In order to demonstrate the importance of combining PSSMs with the specific conservation patterns of functional sites for prediction, three different PSSM-based methods for identifying three kinds of functional sites have been analyzed. Results suggest that, different PSSM-based methods differ in their capability to identify different patterns of functional sites, and better combining PSSMs with the specific conservation patterns of residues would largely facilitate the prediction.

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33

Rao, H., Y. Marahrens, and B. Stillman. "Functional conservation of multiple elements in yeast chromosomal replicators." Molecular and Cellular Biology 14, no. 11 (November 1994): 7643–51. http://dx.doi.org/10.1128/mcb.14.11.7643-7651.1994.

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Replicators that control the initiation of DNA replication in the chromosomes of Saccharomyces cerevisiae retain their function when cloned into plasmids, where they are commonly referred to as autonomously replicating sequences (ARSs). Previous studies of the structure of ARS1 in both plasmid and chromosome contexts have shown that it contains one essential DNA element, A, that includes a match to the ARS consensus sequence (ACS), and three additional elements, B1, B2, and B3, that are also important for ARS function. Elements A and B3 are bound by a candidate initiator protein called the origin recognition complex and ARS-binding factor 1, respectively. Although the A and B3 elements have been found in other ARSs, sequence comparisons among ARSs have failed to identify B1- and B2-like elements. To assess the generality of the modular nature of yeast replicators, linker substitution mutagenesis of another yeast chromosomal replicator, ARS307, was performed. Three DNA sequence elements were identified in ARS307, and they were demonstrated to be functionally equivalent to the A, B1, and B2 elements present in ARS1. Despite the lack of DNA sequence similarity, the B1 and B2 elements at each ARS were functionally conserved. Single-base substitutions in the core of the ARS1 B1 and B2 elements identified critical nucleotides required for the function of the B1 element. In contrast, no single-point mutations were found to affect B2 function. The results suggest that multiple DNA sequence elements might be a general and conserved feature of replicator sequences in S. cerevisiae.

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34

Fox-Erlich, Susan. "Structural conservation of a short, functional, peptide-sequence motif." Frontiers in Bioscience Volume, no. 14 (2009): 1143. http://dx.doi.org/10.2741/3299.

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35

Fossett, Nancy, and Robert A. Schulz. "Functional conservation of hematopoietic factors in Drosophila and vertebrates." Differentiation 69, no. 2-3 (December 2001): 83–90. http://dx.doi.org/10.1046/j.1432-0436.2001.690202.x.

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36

Rao, H., Y. Marahrens, and B. Stillman. "Functional conservation of multiple elements in yeast chromosomal replicators." Molecular and Cellular Biology 14, no. 11 (November 1994): 7643–51. http://dx.doi.org/10.1128/mcb.14.11.7643.

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Анотація:

Replicators that control the initiation of DNA replication in the chromosomes of Saccharomyces cerevisiae retain their function when cloned into plasmids, where they are commonly referred to as autonomously replicating sequences (ARSs). Previous studies of the structure of ARS1 in both plasmid and chromosome contexts have shown that it contains one essential DNA element, A, that includes a match to the ARS consensus sequence (ACS), and three additional elements, B1, B2, and B3, that are also important for ARS function. Elements A and B3 are bound by a candidate initiator protein called the origin recognition complex and ARS-binding factor 1, respectively. Although the A and B3 elements have been found in other ARSs, sequence comparisons among ARSs have failed to identify B1- and B2-like elements. To assess the generality of the modular nature of yeast replicators, linker substitution mutagenesis of another yeast chromosomal replicator, ARS307, was performed. Three DNA sequence elements were identified in ARS307, and they were demonstrated to be functionally equivalent to the A, B1, and B2 elements present in ARS1. Despite the lack of DNA sequence similarity, the B1 and B2 elements at each ARS were functionally conserved. Single-base substitutions in the core of the ARS1 B1 and B2 elements identified critical nucleotides required for the function of the B1 element. In contrast, no single-point mutations were found to affect B2 function. The results suggest that multiple DNA sequence elements might be a general and conserved feature of replicator sequences in S. cerevisiae.

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37

Potrykus, Marta, Małgorzata Golanowska, Nicole Hugouvieux-Cotte-Pattat, and Ewa Lojkowska. "Regulators Involved inDickeya solaniVirulence, Genetic Conservation and Functional Variability." Molecular Plant-Microbe Interactions 2015, no. 1 (January 2015): 57–68. http://dx.doi.org/10.1094/mpmi-99-99-0003-r.testissue.

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38

Potrykus, Marta, Małgorzata Golanowska, Nicole Hugouvieux-Cotte-Pattat, and Ewa Lojkowska. "Regulators Involved inDickeya solaniVirulence, Genetic Conservation and Functional Variability." Molecular Plant-Microbe Interactions 2015, no. 1 (January 2015): 5–16. http://dx.doi.org/10.1094/mpmi-99-99-0004-le.testissue.

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39

Vela, Elena, Josep M. Hilari, María Delclaux, Hugo Fernández-Bellon, and Marcos Isamat. "Conservation of CD44 exon v3 functional elements in mammals." BMC Research Notes 1, no. 1 (2008): 57. http://dx.doi.org/10.1186/1756-0500-1-57.

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40

Copley, R. R., M. Totrov, J. Linnell, S. Field, J. Ragoussis, and I. A. Udalova. "Functional conservation of Rel binding sites in drosophilid genomes." Genome Research 17, no. 9 (July 25, 2007): 1327–35. http://dx.doi.org/10.1101/gr.6490707.

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41

Mylin, Lawrence M., Connie J. Gerardot, James E. Hopper, and Robert C. Dickson. "Sequence conservation in theSaccharomycesandKluveromycesGAL11 transcription acvivators suggests functional domains." Nucleic Acids Research 19, no. 19 (1991): 5345–50. http://dx.doi.org/10.1093/nar/19.19.5345.

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42

Jyväsjärvi, Jussi, Risto Virtanen, Jari Ilmonen, Lauri Paasivirta, and Timo Muotka. "Identifying taxonomic and functional surrogates for spring biodiversity conservation." Conservation Biology 32, no. 4 (May 28, 2018): 883–93. http://dx.doi.org/10.1111/cobi.13101.

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43

Markov, Gabriel V., Jan M. Meyer, Oishika Panda, Alexander B. Artyukhin, Marc Claaßen, Hanh Witte, Frank C. Schroeder, and Ralf J. Sommer. "Functional Conservation and Divergence ofdaf-22Paralogs inPristionchus pacificusDauer Development." Molecular Biology and Evolution 33, no. 10 (April 28, 2016): 2506–14. http://dx.doi.org/10.1093/molbev/msw090.

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