Scientist uncovers roots of antibiotic resistance

Bacteria naturally adapt to various environmental stimuli and as they mutate, these changes can make them resistant to drugs that would kill or slow their growth.

In a recent article published in PLoS Genetics, UCF College of Medicine microbiologist Dr. Salvador Almagro-Moreno uncovers the evolutionary origins of antimicrobial resistance (AMR) in bacteria. His studies on the bacterium that causes cholera, Vibrio cholerae, provide insight into deciphering what conditions must occur for infectious agents to become resistant.

"How AMR occurs in bacterial populations and the pathways leading to these new traits are still poorly understood," he said. "This poses a major public health threat as antimicrobial resistance is on the rise."

Dr. Almagro-Moreno studied genetic variants of a protein found in bacterial membranes called OmpU. Using computational and molecular approaches, his team found that several OmpU mutations in the cholera bacteria led to resistance to numerous antimicrobial agents. This resistance included antimicrobial peptides that act as defenses in the human gut. The researchers found that other OmpU variants did not provide these properties, making the protein an ideal system for deciphering the specific processes that occur to make some bacteria resistant to antimicrobials.

By comparing resistant and antibiotic sensitive variants, the researchers were able to identify specific parts of OmpU associated with the emergence of antibiotic resistance. They also discovered that the genetic material encoding these variants, along with associated traits, can be passed between bacterial cells, increasing therisk of spreading AMR in populations under antibiotic pressure.

By understanding how mutations occur, researchers can better understand and develop therapeutics to combat resistant infections. Dr. Almagro-Moreno is also looking at environmental factors such as pollution and warming of the oceans, as possible causes of resistant bacteria. "We are studying the genetic diversity ofenvironmental populations, including coastal Florida isolates, to develop a new approach to understandinghow antimicrobial resistance evolves," he explained.

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Vocal communication originated over 400 million years ago

The use of vocalizations as a resource for communication is common among several groups of vertebrates: singing birds, croacking frogs, or barking dogs are some well-known examples. These vocalizations play a fundamental role in parental care, mate attraction and various other behaviors. Despite its importance, little is known about when and at what stage in the evolutionary history of vertebrates this behavior first appeared. Comparative analyses can provide insights into the evolutionary origin of acoustic communication, but they are often plagued by missing information from key groups that have not been broadly studied.

Acoustic abilities are widespread in land vertebrates

An international research team led by the University of Zurich (UZH) has therefore focused on species that have never been accessed before. Their study includes evidence for 53 species of four major clades of land vertebrates -- turtles, tuataras, caecilians and lungfishes -- in the form of vocal recordings and contextual behavioral information accompanying sound production. "This, along with a broad literature-based dataset including 1800 different species covering the entire spectrum shows that vocal communication is not only widespread in land vertebrates, but also evidence acoustic abilities in several groups previously considered non-vocal," says first author Gabriel Jorgewich-Cohen, PhD student at the Paleontological Institute and Museum of UZH. Many turtles, for example, which were thought to be mute are in fact showing broad and complex acoustic repertoires.

Last common ancestor lived about 407 million years ago

To investigate the evolutionary origins of acoustic communication in vertebrates, the researchers combined relevant data on the vocalization abilities of species like lizards, snakes, salamanders, amphibians, and dipnoi with phylogenetic trait reconstruction methods. Combined with data of well-known acoustic clades like mammals, birds, and frogs, the researchers were able to map vocal communication in the vertebrate tree of life. "We were able to reconstruct acoustic communication as a shared trait among these animals, which is at least as old as their last common ancestor that lived approximately 407 million years before present," explains Marcelo Sánchez, who led the study.

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Dead fish breathes new life into the evolutionary origin of fins and limbs

A trove of fossils in China, unearthed in rock dating back some 436 million years, have revealed for the first time that the mysterious galeaspids, a jawless freshwater fish, possessed paired fins.

The discovery, by an international team, led by Min Zhu of the Institute of Vertebrate Palaeontology and Palaeoanthropology, Bejiing and Professor Philip Donoghue from the University of Bristol's School of Earth Sciences, shows the primitive condition of paired fins before they separated into pectoral and pelvic fins, the forerunner to arms and legs.

Until now, the only surviving fossils of galeaspids were heads, but these new fossils originating in the rocks of Hunan Province and Chongqing and named Tujiaaspis after the indigenous Tujia people who live in this region, contain their whole bodies.

Theories abound on the evolutionary beginnings of vertebrate fins and limbs -- the evolutionary precursors of arms and legs -- mostly based on comparative embryology. There is a rich fossil record, but early vertebrates either had fins or they didn't. There was little evidence for their gradual evolution.

First author Zhikun Gai, a University of Bristol alumnus, said: "The anatomy of galeaspids has been something of a mystery since they were first discovered more than half a century ago. Tens of thousands of fossils are known from China and Vietnam, but almost all of them are just heads -- nothing has been known about the rest of their bodies -- until now.

"The new fossils are spectacular, preserving the whole body for the first time and revealing that these animals possessed paired fins that extended continuously, all the way from the back of the head to the very tip of the tail. This is a great surprise since galeaspids have been thought to lack paired fins altogether."

Corresponding author Professor Donoghue said: "Tujiaaspis breathes new life into a century old hypothesis for the evolution of paired fins, through differentiation of pectoral (arms) and pelvic (legs) fins over evolutionary time from a continuous head-to-tail fin precursor.

"This 'fin-fold' hypothesis has been very popular but it has lacked any supporting evidence until now. The discovery to Tujiaaspis resurrects the fin-fold hypothesis and reconciles it with contemporary data on the genetic controls on the embryonic development of fins in living vertebrates."

Corresponding author Min Zhu of VPP, Beijing, added "Tujiaaspis shows the primitive condition for paired fins first evolved. Later groups, like the jawless osteostracans show the first evidence for the separation of muscular pectoral fins, retaining long pelvic fins that reduced to the short muscular fins in jawed vertebrates, such as in groups like placoderms and sharks. Nevertheless, we can see vestiges of elongate fin-folds in the embryos of living jawed fishes, which can be experimentally manipulated to reproduce them. The key question is why did fins first evolve in this way?"

Bristol's Dr Humberto Ferron used computational engineering approaches to simulate the behaviour of models of Tujiaaspis with and without the paired fins. The co-author said: "The paired fins of Tujiaaspis act as hydrofoils, passively generating lift for the fish without any muscular input from the fins themselves. The lateral fin-folds of Tujiaaspis allowed it to swim more efficiently."

Co-author Dr Joseph Keating at Bristol modelled the evolution of paired fins. He said: "Fossil jawless vertebrates display a dizzying array of fin types, which has provoked extensive debate about the evolution of paired fins.

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Trans-Neptunian object Arrokoth: Flattening of a snowman

 The trans-Neptunian object Arrokoth, also known as Ultima Thule, which NASA's space probe New Horizons passed on New Year's Day 2019, may have changed its shape significantly in the first 100 million years since its formation. In today's issue of the journal Nature Astronomy, researchers led by the Chinese Academy of Sciences and the Max Planck Institute for Solar System Research (MPS) suggest that the current shape of Arrokoth, which resembles a flattened snowman, could be of evolutionary origin due to volatile outgassing. Their calculations help to understand what the current state of bodies from the edge of the Solar System may teach us about their original properties.

The many millions of bodies populating the Kuiper Belt beyond Neptune's orbit are yet to reveal many of their secrets. NASA's spacecraft New Horizons sent the first images from the outermost edge of the solar system to Earth: in the summer of 2015 of dwarf planet Pluto and three and a half years later of the trans-Neptunian object Arrokoth, about 30 kilometers in size. Not yet officially named, the body was nicknamed Ultima Thule at the time, in reference to the northernmost land point on Earth. After all, the trans-Neptunian object is the body furthest away from the Sun that has ever been visited and imaged by a human-made probe.

Especially Arrokoth's strange shape caused a sensation in the days after the fly-by. The body is a contact binary, believed to be a result of low velocity merging of two separate bodies that formed close together. It is composed of two connected lobes, of which the smaller one is slightly flattened, the larger one strongly so, creating the impression of a squashed snowman. In their current publication, the researchers from China, Germany, and the USA investigate how this shape came to be. A pronounced bi-lobed shape is also known from some comets. However, there is no other known body that is as flat as Arrokoth. Did Arrokoth already look like this when it was created? Or did its shape develop gradually?

"We like to think of the Kuiper Belt as a region where time has more or less stood still since the birth of the Solar System," explains Dr. Ladislav Rezac from MPS, one of the two first authors of the current publication. More than four billion kilometers away from the Sun, the bodies of the Kuiper Belt have remained frozen and unchanged, so is the common belief. New Horizon's images of Arrokoth challenge this idea by its apparently smooth surface without signs of frequent cratering events and by its peculiar, flattened shape. Scientists assume that the Solar System was formed 4.6 billion years ago from a disk of dust: the particles from this nebula agglomerated into ever larger clumps; these clumps collided and merged into even larger bodies. "There is as yet no explanation as to how a body as flat as Arrokoth could emerge from this process," says Rezac.

Another possibility would be that Arrokoth had a more ordinary shape to begin with. It may have started as a merger between a spherical and an oblate body at the time of its creation and only gradually become flattened. Earlier studies suggest that during the formation of the Solar System, the region where Arrrokoth is located could have been a distinct environment in the cold, dust-shaded mid-plane of the outer nebula. The low temperatures enabled volatiles such as carbon monoxide and methane to freeze onto dust grains and compose planetesimals. When the nebular dust cleared after Arrokoth's formation, solar illumination would have raised its temperature and hence rapidly driven off the condensed volatiles. Arrokoth's strange shape would then be a natural outcome due to a favorable combination of its large obliquity, small eccentricity and mass-loss rate variation with solar flux, resulting in nearly symmetric erosion between north and south hemispheres.

"For a body to change its shape as extremely as Arrokoth, its rotational axis needs to be oriented in a special way," Rezac explains. Unlike Earth's rotational axis, Arrokoth's is almost parallel to the orbital plane. During its 298 year orbit around the Sun, one polar region of Arrokoth faces the Sun continuously for nearly half the time while the other faces away. Regions at equator and lower latitudes are dominated by diurnal variations year round. "This causes the poles to heat up the most, so that frozen gases escape from there most efficiently resulting in a strong mass loss," says Dr. Yuhui Zhao from the Purple Mountain Observatory of the Chinese Academy of Sciences. The flattening process most likely occurred early in the evolution history of the body and proceeded rather quickly on a timescale of about one to 100 million years during the presence of super volatile ices in the near subsurface layers. In addition, the scientists self-consistently demonstrated that the induced torques would play a negligible role in the planetesimal's spin state change during the mass loss phase.

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