1,721,278 research outputs found
Neocosmospora kurunegalensis Samuels, Nalim & Geiser, Mycologia
No full textN. kurunegalensis Samuels, Nalim & Geiser, Mycologia 103(6): 1324 (2011) / IF 519847 Typification Details: Holotype BPI 872931, On recently cut non-native tree Reference: Nalim et al. (2011)Published as part of Wijayawardene, Nalin N., Dai, Dong-Qin, Premarathne, Bhagya M., Wimalasena, Madhara K., Jayalal, Udeni, Wickramanayake, Kawmini D., Dangalla, Hasanka, Jayathunga, Hashini, Brahmanage, Rashika S., Karunarathna, Samantha C., Weerakoon, Gothamie, Ariyawansa, Kahandawa G. S. U., Yapa, Neelamanie, Madawala, Sumedha, Nanayakkara, Chandrika M., Fan, Xin-Lei, Kirk, Paul M., Zhang, Gui-Qing, Ediriweera, Aseni, Bhat, Jayarama, Dawoud, Turki M. & Tibpromma, Saowaluck, 2023, Checklist, typification details, and nomenclature status of ascomycetous fungi originally described in Sri Lanka, pp. 1-105 in Phytotaxa 611 (1) on page 74, DOI: 10.11646/phytotaxa.611.1.1, http://zenodo.org/record/830873
Fusarium kelerajum Samuels, Nalim & Geiser, Mycologia
No full textF. kelerajum Samuels, Nalim & Geiser, Mycologia 103(6): 1326 (2011) / IF 519856 Typification Details: Holotype BPI 881124 Reference: Nalim et al. (2011)Published as part of Wijayawardene, Nalin N., Dai, Dong-Qin, Premarathne, Bhagya M., Wimalasena, Madhara K., Jayalal, Udeni, Wickramanayake, Kawmini D., Dangalla, Hasanka, Jayathunga, Hashini, Brahmanage, Rashika S., Karunarathna, Samantha C., Weerakoon, Gothamie, Ariyawansa, Kahandawa G. S. U., Yapa, Neelamanie, Madawala, Sumedha, Nanayakkara, Chandrika M., Fan, Xin-Lei, Kirk, Paul M., Zhang, Gui-Qing, Ediriweera, Aseni, Bhat, Jayarama, Dawoud, Turki M. & Tibpromma, Saowaluck, 2023, Checklist, typification details, and nomenclature status of ascomycetous fungi originally described in Sri Lanka, pp. 1-105 in Phytotaxa 611 (1) on page 70, DOI: 10.11646/phytotaxa.611.1.1, http://zenodo.org/record/830873
Fusarium kurunegalense Samuels, Nalim & Geiser, Mycologia
No full textF. kurunegalense Samuels, Nalim & Geiser, Mycologia 103(6): 1323 (2011) / IF 519848 Typification Details: Holotype BPI 881225 Reference: Nalim et al. (2011)Published as part of Wijayawardene, Nalin N., Dai, Dong-Qin, Premarathne, Bhagya M., Wimalasena, Madhara K., Jayalal, Udeni, Wickramanayake, Kawmini D., Dangalla, Hasanka, Jayathunga, Hashini, Brahmanage, Rashika S., Karunarathna, Samantha C., Weerakoon, Gothamie, Ariyawansa, Kahandawa G. S. U., Yapa, Neelamanie, Madawala, Sumedha, Nanayakkara, Chandrika M., Fan, Xin-Lei, Kirk, Paul M., Zhang, Gui-Qing, Ediriweera, Aseni, Bhat, Jayarama, Dawoud, Turki M. & Tibpromma, Saowaluck, 2023, Checklist, typification details, and nomenclature status of ascomycetous fungi originally described in Sri Lanka, pp. 1-105 in Phytotaxa 611 (1) on page 70, DOI: 10.11646/phytotaxa.611.1.1, http://zenodo.org/record/830873
Fusarium mahasenii Samuels, Nalim & Geiser, Mycologia
No full textF. mahasenii Samuels, Nalim & Geiser, Mycologia 103(6): 1325 (2011) / IF 519853 Typification Details: Holotype BPI 881228 Reference: Nalim et al. (2011)Published as part of Wijayawardene, Nalin N., Dai, Dong-Qin, Premarathne, Bhagya M., Wimalasena, Madhara K., Jayalal, Udeni, Wickramanayake, Kawmini D., Dangalla, Hasanka, Jayathunga, Hashini, Brahmanage, Rashika S., Karunarathna, Samantha C., Weerakoon, Gothamie, Ariyawansa, Kahandawa G. S. U., Yapa, Neelamanie, Madawala, Sumedha, Nanayakkara, Chandrika M., Fan, Xin-Lei, Kirk, Paul M., Zhang, Gui-Qing, Ediriweera, Aseni, Bhat, Jayarama, Dawoud, Turki M. & Tibpromma, Saowaluck, 2023, Checklist, typification details, and nomenclature status of ascomycetous fungi originally described in Sri Lanka, pp. 1-105 in Phytotaxa 611 (1) on page 70, DOI: 10.11646/phytotaxa.611.1.1, http://zenodo.org/record/830873
Fusarium pseudensiforme Samuels, Nalim & Geiser, Mycologia
No full textF. pseudensiforme Samuels, Nalim & Geiser, Mycologia 103(6): 1323 (2011) / IF 519839 Typification Details: Holotype BPI 881226 Reference: Nalim et al. (2011)Published as part of Wijayawardene, Nalin N., Dai, Dong-Qin, Premarathne, Bhagya M., Wimalasena, Madhara K., Jayalal, Udeni, Wickramanayake, Kawmini D., Dangalla, Hasanka, Jayathunga, Hashini, Brahmanage, Rashika S., Karunarathna, Samantha C., Weerakoon, Gothamie, Ariyawansa, Kahandawa G. S. U., Yapa, Neelamanie, Madawala, Sumedha, Nanayakkara, Chandrika M., Fan, Xin-Lei, Kirk, Paul M., Zhang, Gui-Qing, Ediriweera, Aseni, Bhat, Jayarama, Dawoud, Turki M. & Tibpromma, Saowaluck, 2023, Checklist, typification details, and nomenclature status of ascomycetous fungi originally described in Sri Lanka, pp. 1-105 in Phytotaxa 611 (1) on page 70, DOI: 10.11646/phytotaxa.611.1.1, http://zenodo.org/record/830873
Fusarium haematococcum Nalim, Samuels & Geiser, Mycologia
No full text<i>F. haematococcum</i> Nalim, Samuels & Geiser, Mycologia 103(6): 1322 (2011) / IF 519837 <p>Typification Details: Holotype BPI 881227</p> <p> Reference: Nalim <i>et al.</i> (2011)</p>Published as part of <i>Wijayawardene, Nalin N., Dai, Dong-Qin, Premarathne, Bhagya M., Wimalasena, Madhara K., Jayalal, Udeni, Wickramanayake, Kawmini D., Dangalla, Hasanka, Jayathunga, Hashini, Brahmanage, Rashika S., Karunarathna, Samantha C., Weerakoon, Gothamie, Ariyawansa, Kahandawa G. S. U., Yapa, Neelamanie, Madawala, Sumedha, Nanayakkara, Chandrika M., Fan, Xin-Lei, Kirk, Paul M., Zhang, Gui-Qing, Ediriweera, Aseni, Bhat, Jayarama, Dawoud, Turki M. & Tibpromma, Saowaluck, 2023, Checklist, typification details, and nomenclature status of ascomycetous fungi originally described in Sri Lanka, pp. 1-105 in Phytotaxa 611 (1)</i> on page 70, DOI: 10.11646/phytotaxa.611.1.1, <a href="http://zenodo.org/record/8308739">http://zenodo.org/record/8308739</a>
Search for a high-mass calibrant for NALIM (Native Liquid MALDI MS): the case of mouse IgA
No full textInternational audienceNative mass spectrometry (native MS) is a set of methods to analyze biomolecular assemblies directly in an instrument. To this end, biomolecular objects or complexes are exposed only to non-denaturing conditions to preserve their three-dimensional structure intact from the sample solution to the gas phase.In pharmacology, membrane proteins represent two-thirds of therapeutic targets, yet only 10% have been targeted so far. The characterization of membrane proteins by native MS can open many paths for biology and pre-clinical studies.To this day, the go-to method for native MS is based on electrospray ionization (ESI). However, membrane protein analysis by native ESI-MS is still a challenge. This is because these proteins necessitate detergents for solubilization in MS-compatible buffers. Detergents in turn can give rise to ion suppression, adduction, and degraded instrument performance. These effects can be somewhat mitigated by working above the detergent's critical micellar concentration [1].MALDI (Matrix-assisted laser desorption-ionization) ionization presents numerous advantages in this context. It is highly tolerant to contaminants and consumes little quantities of sample, making it de facto attractive for the native MS analysis of membrane proteins. Using these unique properties, we established a new native MS MALDI method using liquid spots called Native Liquid MALDI (NALIM) [2]. The success of this method relies on: (i) a matrix mixture that can be used in native conditions (pH 5), (ii) a liquid matrix that enables to gently transfer complexes in the gas phase while avoiding the transition through the solid state, which is the basis of classical solid-spot deposition methods. We are currently extending applications of the NALIM method to the observation of membrane protein complexes. In NALIM, we mainly observe low charge states (1+ and 2+), the monocharged state being largely predominant. Thus, the application of NALIM to large membrane protein-containing assemblies requires calibrant standards at high m/z ratios. In search of such calibrants, we investigated the use of an immunoglobulin A. Here we report on the suitability and usability of an IgA for calibration over a wide mass range. Optimizations include biochemical preparation, control of the degree of oligomerization and instrumental setup for NaLiM.[1] Barrera, N.P., Bartolo, N.D., Booth, P.J., and Robinson, C.V. (2008). Micelles Protect Membrane Complexes from Solution to Vacuum. Science 321, 243–246.[2] Beaufour, M., Ginguené, D., Le Meur, R., Castaing, B., and Cadene, M. (2018). Liquid Native MALDI Mass Spectrometry for the Detection of Protein-Protein Complexes. J. Am. Soc. Mass Spectrom. 29, 1981–1994
Going Beyond Counting First Authors in Author Co-citation Analysis
Get PDFThe present study examines one of the fundamental aspects of author co-citation analysis (ACA) - the way co-citation
counts are defined. Co-citation counting provides the data on which all subsequent statistical analyses and mappings
are based, and we compare ACA results based on two different types of co-citation counting - the traditional type that
only counts the first one among a cited work's authors on the one hand and a non-traditional type that takes into
account the first 5 authors of a cited work on the other hand. Results indicate that the picture produced through this non-traditional author co-citation counting contains more coherent author groups and is therefore considerably clearer. However, this picture represents fewer specialties in the research field being studied than that produced through the traditional first-author co-citation counting when the same number of top-ranked authors is selected and analyzed. Reasons for these effects are discussed
Caractérisation structurale et fonctionnelle de complexes de protéines membranaires et d'oligomères solubles d'intérêt thérapeutique directement par NALIM (Native Liquid MALDI) - TOF MS, une approche originale de spectrométrie de masse
No full textBien que les protéines membranaires (PMs) représentent les deux tiers des cibles thérapeutiques potentielles, seulement 10 % de ces protéines ont été exploitées comme cibles jusqu'à présent. Ceci est dû à un manque d'information structurale, attribué aux défis liés à la production des PMs et au besoin d'agents de solubilisation. De plus, des fonctions biologiques clés dépendent de la formation de grands complexes par le biais d'interactions avec d'autres biomolécules telles que les acides nucléiques, les peptides ou d'autres protéines. Ainsi, la taille de ces complexes (c'est-à-dire, 100 000 Da ou plus) et leur grande hétérogénéité imposent des limitations à leur caractérisation structurale. Au cours de la dernière décennie, la caractérisation de complexes non covalents par spectrométrie de masse native (nMS) est apparue comme un bon complément aux techniques traditionnelles de biologie structurale. Nous montrons ici comment une nouvelle méthode appelée « NAtive LIquid MALDI » (NALIM), qui exploite les avantages intrinsèques de MALDI-TOF MS – une grande tolérance aux contaminants, une faible consommation d'échantillons et une gamme de masse d'analyse théoriquement illimitée - peut répondre aux questions sur la structure des PMs et des complexes biomoléculaires de grande taille. De plus, pour se rapprocher des conditions in vivo de la bicouche lipidique de la membrane native, la méthode NALIM a également été appliquée à la caractérisation de complexes de protéines membranaires dans les proteoliposomes et les vésicules membranaires. À cette fin, des conditions non dénaturantes soigneusement contrôlées, des composants de solution d'échantillon et des paramètres instrumentaux ont été optimisés pour améliorer la stabilité des complexes, ainsi que la résolution et la sensibilité dans la gamme des hautes masses. Grâce à ces optimisations, la méthode NALIM a facilité la caractérisation de divers transporteurs membranaires (par exemple, un transporteur ABC et un canal ionique), de grandes distributions d'oligomères (par exemple, le facteur de transcription ZBTB8A) et de grands complexes moléculaires (complexe Rho-NusG). De plus, le développement de la méthode NALIM a impliqué l'exploration de différentes protéines pour trouver un calibrant approprié pour l'analyse dans la gamme des hautes masses. Une préparation d'alpha1-antitrypsine (α1AT) formant une échelle moléculaire sur une large gamme de masse a été validée comme calibrant. En résumé, l’analyse par NALIM a permis un accès rapide et direct à la caractérisation des PMs et des grands complexes biomoléculaires. Les informations fournies par NALIM ont une valeur significative en biologie et en pharmacologie. Ainsi, la méthode NALIM promet d'être une alternative pour de nouvelles stratégies de découverte de médicaments.Although membrane proteins (MPs) represent two-thirds of potential therapeutic targets, only 10% of these proteins have been exploited thus far. This is due to a lack of structural information, attributed to the challenges associated with producing MPs and the need for solubilizing agents. Additionally, key biological functions depend on the formation of large complexes through interactions with other biomolecules such as nucleic acids, peptides, or other proteins. Thus, the size of these complexes (i.e.,100,000 Da or higher) and their high heterogeneity impose additional limitations on their structural characterization. Over the past decade, the characterization of noncovalent complexes through native mass spectrometry (nMS) has emerged as avaluable complement to traditional Structural Biology techniques. Here we show how a novel method called Native Liquid MALDI(NALIM), which leverages the inherent strengths of MALDI-TOF MS - high tolerance to contaminants, low sample consumption,and a theoretically limitless mass range of analysis – to answer questions about the structure of MPs and large biomolecularcomplexes. Additionally, to get closer to the in vivo conditions of the native membrane's lipid bilayer, NALIM was also applied tothe characterization of membrane proteins in proteoliposomes and membrane vesicles.To this end, carefully controlled non-denaturing conditions, sample solution components, and instrumental parameters were fine-tuned to enhance complex stability, as well as resolution and sensitivity in the high mass range. Thanks to these optimizations, NALIM facilitated the characterization of diverse membrane transporters (e.g., an ABC transporter and an ion channel), large oligomer distributions (e.g., ZBTB8A transcription factor), and large molecular complexes (Rho-NusG complex). Furthermore, the development of the NALIM method involved exploring different proteins to find a suitable calibrant for high mass range analysis. Apreparation of alpha1-antitrypsin (α1AT) that forms a molecular ladder over a wide mass range was validated as a calibrant.In summary, NALIM enabled rapid and straightforward access to characterizing MPs and large biomolecular complexes. The information provided by NALIM has significant value in biology and pharmacology. Thus, NALIM promises to be an alternative for new strategies of drug discovery. molecular ladde
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