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7. Multiple Megaslide Complexes and Their Significance for the Miocene Stratigraphic Evolution of the Offshore Amazon Basin

Author

Silva, Cleverson C., dos Reis, Antonio T., Perovano, Rodrigo J., Gorini, Marcus A., dos Santos, Marcos V. M., Jeck, Izabel K., Tavares, Ana Angélica A., Gorini, Christian, Lamarche, Geoffroy, editor, Mountjoy, Joshu, editor, Bull, Suzanne, editor, Hubble, Tom, editor, Krastel, Sebastian, editor, Lane, Emily, editor, Micallef, Aaron, editor, Moscardelli, Lorena, editor, Mueller, Christof, editor, Pecher, Ingo, editor, and Woelz, Susanne, editor

Published
2016
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12. Multiclonal human origin and global expansion of an endemic bacterial pathogen of livestock

Author

Yebra, Gonzalo, primary, Harling-Lee, Joshua D., additional, Lycett, Samantha, additional, Aarestrup, Frank M., additional, Larsen, Gunhild, additional, Cavaco, Lina M., additional, Seo, Keun Seok, additional, Abraham, Sam, additional, Norris, Jacqueline M., additional, Schmidt, Tracy, additional, Ehlers, Marthie M., additional, Sordelli, Daniel O., additional, Buzzola, Fernanda R., additional, Gebreyes, Wondwossen A., additional, Gonçalves, Juliano L., additional, dos Santos, Marcos V., additional, Zakaria, Zunita, additional, Rall, Vera L. M., additional, Keane, Orla M., additional, Niedziela, Dagmara A., additional, Paterson, Gavin K., additional, Holmes, Mark A., additional, Freeman, Tom C., additional, and Fitzgerald, J. Ross, additional

Published
2022
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13. Multiclonal human origin and global expansion of an endemic bacterial pathogen of livestock:Evolutionary history of bovine Staphylococcus aureus

Author

Yebra, Gonzalo, Harling-Lee, Josh, Lycett, Samantha, Aarestrup, Frank M., Larsen, Gunhild, Cavaco, Lina M., Seo, Keun Seok, Abraham, Sam, Norris, Jacqueline M., Schmid, Tracy, Ehlers, Marthie M, Sordelli, Daniel O, Buzzola, Fernanda R, Gebreyes, Wondwossen A, Gonçalves, Juliano L., dos Santos, Marcos V., Zakaria, Zunita, Rall, Vera L. M., Keane, Orla M., Niedziela, Dagmara A., Paterson, Gavin, Holmes, Mark A., Freeman, Thomas C, and Fitzgerald, Ross

Subjects
Staphylococcus aureus, population genomics, host-adaptation, phylodynamics, agriculture
Abstract

Most new pathogens of humans and animals arise via switching events from distinct host species. However, our understanding of the evolutionary and ecological drivers of successful host-adaptation, expansion and dissemination are limited. Staphylococcus aureus is a major bacterial pathogen of humans and a leading cause of mastitis in dairy cows worldwide. Here we trace the evolutionary history of bovine S. aureus using a global dataset of 10,254 S. aureus genomes including 1,896 bovine isolates from 32 countries in 6 continents. We identified 7 major contemporary endemic clones of S. aureus causing bovine mastitis around the world and traced them back to 4 independent host-jump events from humans that occurred up to 2,500 years ago. Individual clones emerged and underwent clonal expansion from the mid-19th to late 20th century coinciding with the commercialisation and industrialisation of dairy farming, and older lineages have become globally-distributed via established cattle trade links. Importantly, we identified lineage-dependent differences in the frequency of host transmission events between humans and cows in both directions revealing high risk clones threatening veterinary and human health. Finally, pan-genome network analysis revealed that some bovine S. aureus lineages contained distinct sets of bovine associated genes, consistent with multiple trajectories to host-adaptation via gene acquisition. Taken together, we have dissected the evolutionary history of a major endemic pathogen of livestock providing a comprehensive temporal, geographic and gene-level perspective of its remarkable success.

Published
2022

14. The Impact of Selective Dry Cow Therapy Adopted in a Brazilian Farm on Bacterial Diversity and the Abundance of Quarter Milk

Author

Goncalves, Juliano L., primary, Young, Juliana, additional, Leite, Renata de F., additional, Fidelis, Carlos E., additional, Trevisoli, Priscila A., additional, Coutinho, Luiz L., additional, Silva, Nathália C. C., additional, Cue, Roger I., additional, Rall, Vera Lucia Mores, additional, and dos Santos, Marcos V., additional

Published
2022
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15. Physiochemically Distinct Surface Properties of SU-8 Polymer Modulate Bacterial Cell-Surface Holdfast and Colonization

Author

Anbumani, Silambarasan, primary, da Silva, Aldeliane M., additional, Alaferdov, Andrei, additional, Puydinger dos Santos, Marcos V., additional, Carvalho, Isis G. B., additional, de Souza e Silva, Mariana, additional, Moshkalev, Stanislav, additional, Carvalho, Hernandes F., additional, de Souza, Alessandra A., additional, and Cotta, Monica A., additional

Published
2022
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17. Multiclonal human origin and global expansion of an endemic bacterial pathogen of livestock

Author

Yebra, Gonzalo, Harling-Lee, Joshua D., Lycett, Samantha, Aarestrup, Frank M., Larsen, Gunhild, Cavaco, Lina M., Seo, Keun Seok, Abraham, Sam, Norris, Jacqueline M., Schmidt, Tracy, Ehlers, Marthie M., Sordelli, Daniel O., Buzzola, Fernanda R., Gebreyes, Wondwossen A., Gonçalves, Juliano L., dos Santos, Marcos V., Zakaria, Zunita, Rall, Vera L. M., Keane, Orla M., Niedziela, Dagmara A., Paterson, Gavin K., Holmes, Mark A., Freeman, Tom C., Fitzgerald, J. Ross, Yebra, Gonzalo, Harling-Lee, Joshua D., Lycett, Samantha, Aarestrup, Frank M., Larsen, Gunhild, Cavaco, Lina M., Seo, Keun Seok, Abraham, Sam, Norris, Jacqueline M., Schmidt, Tracy, Ehlers, Marthie M., Sordelli, Daniel O., Buzzola, Fernanda R., Gebreyes, Wondwossen A., Gonçalves, Juliano L., dos Santos, Marcos V., Zakaria, Zunita, Rall, Vera L. M., Keane, Orla M., Niedziela, Dagmara A., Paterson, Gavin K., Holmes, Mark A., Freeman, Tom C., and Fitzgerald, J. Ross

Abstract

Most new pathogens of humans and animals arise via switching events from distinct host species. However, our understanding of the evolutionary and ecological drivers of successful host adaptation, expansion, and dissemination are limited. Staphylococcus aureus is a major bacterial pathogen of humans and a leading cause of mastitis in dairy cows worldwide. Here we trace the evolutionary history of bovine S. aureus using a global dataset of 10,254 S. aureus genomes including 1,896 bovine isolates from 32 countries in 6 continents. We identified 7 major contemporary endemic clones of S. aureus causing bovine mastitis around the world and traced them back to 4 independent host-jump events from humans that occurred up to 2,500 y ago. Individual clones emerged and underwent clonal expansion from the mid-19th to late 20th century coinciding with the commercialization and industrialization of dairy farming, and older lineages have become globally distributed via established cattle trade links. Importantly, we identified lineage-dependent differences in the frequency of host transmission events between humans and cows in both directions revealing high risk clones threatening veterinary and human health. Finally, pangenome network analysis revealed that some bovine S. aureus lineages contained distinct sets of bovine-associated genes, consistent with multiple trajectories to host adaptation via gene acquisition. Taken together, we have dissected the evolutionary history of a major endemic pathogen of livestock providing a comprehensive temporal, geographic, and gene-level perspective of its remarkable success.

Published
2022

21. Molecular characterization of persistent subclinical mastitis-causing Staphylococcus aureusfrom dairy farms

Author

Gonçalves, Juliano Leonel, Lee, Sarah H. I., Camargo, Carlos H., Zanella, Rosemeire Cobo, Silva, Nathália C. C., Rall, Vera. L. M., Cue, Roger I., and dos Santos, Marcos V.

Abstract

The study aimed to evaluate the genetic diversity of Staphylococcus aureuscausing subclinical mastitis (SM) isolated from dairy cows and to assess the effect of the infection status (transient vs. persistent) on the milk and component yield. A total of six dairy farms in São Paulo state were used for the selection of cows with SM caused by S. aureus. S. aureusstrains (n= 56) obtained from three biweekly aseptic mammary quarter milk samplings (n= 1140 from 95 cows) were subjected to MALDI-TOF MS analysis for species confirmation and further PFGE analysis. Intramammary infections (IMI) caused by S. aureuswere categorized as transient (T: when only one out of 3 milk samplings had positive isolation of any pulsotype) or persistent (P: when two (P2) or three (P3) milk samplings had positive isolation of identical pulsotype over the consecutive episodes of SM. The SmaImacrorestriction fragment profiles of 56 S. aureusisolates showed a dominant S. aureusclonal pattern (PFGE type A; n= 50; 89.3%) within and among the herds. The SM-causing S. aureusrepresented a reduction of quarter milk yield of 26.2% in transient and 54.8% in persistent cases as well as a reduction of total solid yield of 38.1% and 49.4%, respectively, when compared with the healthy control quarters. Overall, the greater chance of S. aureusto be persistent is when a dominant clonal pattern is present in the herd which consequently may be associated with the cause of accentuated milk loss.

Published
2023
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22. Physiochemically distinct SU-8 surfaces tailor Xylella fastidiosa cell-surface holdfast and colonization

Author

Anbumani, Silambarasan, primary, da Silva, Aldeliane M., additional, Alaferdov, Andrei, additional, Puydinger dos Santos, Marcos V., additional, Carvalho, Isis G. B., additional, de Souza e Silva, Mariana, additional, Moshkalev, Stanislav, additional, Carvalho, Hernandes F., additional, de Souza, Alessandra A., additional, and Cotta, Monica A., additional

Published
2021
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34. MALDI-TOF MS identification of Protothecaalgae associated with bovine mastitis

Author

Fidelis, Carlos E., Franke, Manoela, de Abreu, Letícia C. R., Jagielski, Tomasz, Ribeiro, Márcio G., dos Santos, Marcos V., and Gonçalves, Juliano L.

Abstract

We evaluated the use of MALDI-TOF MS for the identification of 3 major, dairy-associated Protothecaspecies, namely, Prototheca bovis(formerly P. zopfiigenotype 2), P. blaschkeae, and P. ciferrii(formerly P. zopfiigenotype 1). The MALDI-TOF MS spectra established for those species were introduced into the reference spectra library of the Bruker Biotyper MALDI-TOF MS analysis software. Next, 31 Protothecaisolates from Holstein cows with mastitis, from herds located in the midwestern area of São Paulo State, Brazil, were subjected to MALDI-TOF MS profiling. MALDI-TOF MS allowed identification of 22 of 27 P. bovisand 3 of 4 P. blaschkeaeisolates with scores >2.0, with 5 of 27 P. bovisand 1 of 4 P. blaschkeaeisolates identified only to the genus level. With our extended algae database, MALDI-TOF MS can contribute to quick and effective speciation of Protothecafrom mastitis cases.

Published
2021
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35. Detection of Au+Ions During Fluorine Gas-Assisted Time-of-Flight Secondary Ion Mass Spectrometry (TOF-SIMS) for the Complete Elemental Characterization of Microbatteries

Author

Priebe, Agnieszka, Sastre, Jordi, Futscher, Moritz H., Jurczyk, Jakub, Puydinger dos Santos, Marcos V., Romanyuk, Yaroslav E., and Michler, Johann

Abstract

Due to excellent electric conductivity and chemical inertness, Au can be used in new microdevices for energy applications, microelectronics, and biomedical solutions. However, the chemical analysis of Au-containing systems using time-of-flight secondary ion mass spectrometry (TOF-SIMS) can be difficult because of the negative ionization of Au, as most metals form positive ions, and therefore cannot be detected from the same analytical volume. In this work, we present the potential of fluorine gas coinjection for altering the polarity, from the negative to positive, of Au secondary ions generated under Ga+beam bombardment. The importance of detecting Au+ions and representing their spatial distribution in nanoscale was demonstrated using a novel solid electrolyte for Li-ion solid-state batteries, amorphous Li7La3Zr2O12(aLLZO). This allowed for assessing the migration of mobile Li+ions outside the aLLZO layer and alloying the Au layer with Li, which explained the presence of an internal electric field observed during the polarization measurements. Remarkably, during fluorine gas-assisted TOF-SIMS measurements, the trace amount of Au content (5 ppm) was detected in a Pt layer (unattainable under standard vacuum conditions). In conclusion, fluorine gas-assisted TOF-SIMS can help understanding operation mechanisms and potential degradation processes of microdevices and therefore help optimizing their functionality.

Published
2021
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36. Bright and Vivid Diffractive–Plasmonic Reflective Filters for Color Generation.

Author

Melo, Emerson G., Ribeiro, Ana L. A., Benevides, Rodrigo S., Zuben, Antonio A. G. V., Puydinger dos Santos, Marcos V., Silva, Alexandre A., Wiederhecker, Gustavo S., and Alegre, Thiago P. M.

Abstract

The desire to reproduce vivid colors such as those found in birds, fishes, flowers, and insects has driven extensive research into nanostructured surfaces especially because of their high spatial resolution. Using a periodic silicon-patterned structure coated with aluminum, we combine two distinct and yet interconnected effects to produce bright and vivid color surfaces. A genetic algorithm optimization process was used to fine-tune both the diffraction and plasmonic effects to obtain reflective color filters for the red, green, and blue colors. The obtained structures are suitable for displays, image applications, color sensors, and optical filters. [ABSTRACT FROM AUTHOR]

Published
2020
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39. Direct Electron Beam Writing of Silver-Based Nanostructures

Author

Höflich, Katja, primary, Jurczyk, Jakub, additional, Zhang, Yucheng, additional, Puydinger dos Santos, Marcos V., additional, Götz, Maximilian, additional, Guerra-Nuñez, Carlos, additional, Best, James P., additional, Kapusta, Czeslaw, additional, and Utke, Ivo, additional

Published
2017
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40. Annealing-Based Electrical Tuning of Cobalt–Carbon Deposits Grown by Focused-Electron-Beam-Induced Deposition

Author

Puydinger dos Santos, Marcos V., primary, Velo, Murilo F., additional, Domingos, Renan D., additional, Zhang, Yucheng, additional, Maeder, Xavier, additional, Guerra-Nuñez, Carlos, additional, Best, James P., additional, Béron, Fanny, additional, Pirota, Kleber R., additional, Moshkalev, Stanislav, additional, Diniz, José A., additional, and Utke, Ivo, additional

Published
2016
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45. Detection of Au + Ions During Fluorine Gas-Assisted Time-of-Flight Secondary Ion Mass Spectrometry (TOF-SIMS) for the Complete Elemental Characterization of Microbatteries.

Author

Priebe A, Sastre J, Futscher MH, Jurczyk J, Puydinger Dos Santos MV, Romanyuk YE, and Michler J

Abstract

Due to excellent electric conductivity and chemical inertness, Au can be used in new microdevices for energy applications, microelectronics, and biomedical solutions. However, the chemical analysis of Au-containing systems using time-of-flight secondary ion mass spectrometry (TOF-SIMS) can be difficult because of the negative ionization of Au, as most metals form positive ions, and therefore cannot be detected from the same analytical volume. In this work, we present the potential of fluorine gas coinjection for altering the polarity, from the negative to positive, of Au secondary ions generated under Ga + beam bombardment. The importance of detecting Au + ions and representing their spatial distribution in nanoscale was demonstrated using a novel solid electrolyte for Li-ion solid-state batteries, amorphous Li 7 La 3 Zr 2 O 12 (aLLZO). This allowed for assessing the migration of mobile Li + ions outside the aLLZO layer and alloying the Au layer with Li, which explained the presence of an internal electric field observed during the polarization measurements. Remarkably, during fluorine gas-assisted TOF-SIMS measurements, the trace amount of Au content (5 ppm) was detected in a Pt layer (unattainable under standard vacuum conditions). In conclusion, fluorine gas-assisted TOF-SIMS can help understanding operation mechanisms and potential degradation processes of microdevices and therefore help optimizing their functionality.

Published
2021
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46. Low-temperature electronic transport of manganese silicide shell-protected single crystal nanowires for nanoelectronics applications.

Author

da Cruz ADSE, Puydinger Dos Santos MV, Campanelli RB, Pagliuso PG, Bettini J, Pirota KR, and Béron F

Abstract

Recently, core-shell nanowires have been proposed as potential electrical connectors for nanoelectronics components. A promising candidate is Mn 5 Si 3 nanowires encapsulated in an oxide shell, due to their low reactivity and large flexibility. In this work, we investigate the use of the one-step metallic flux nanonucleation method to easily grow manganese silicide single crystal oxide-protected nanowires by performing their structural and electrical characterization. We find that the fabrication method yields a room-temperature hexagonal crystalline structure with the c -axis along the nanowire. Moreover, the obtained nanowires are metallic at low temperature and low sensitive to a strong external magnetic field. Finally, we observe an unknown electron scattering mechanism for small diameters. In conclusion, the one-step metallic flux nanonucleation method yields intermetallic nanowires suitable for both integration in flexible nanoelectronics as well as low-dimensionality transport experiments., Competing Interests: The authors declare that there is no conflict of interest., (This journal is © The Royal Society of Chemistry.)

Published
2021
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