Photon diagnostics at the FLASH THz beamline

The THz beamline at FLASH, DESY, provides both tunable (1–300 THz) narrow-bandwidth (∼10%) and broad-bandwidth intense (up to 150 uJ) THz pulses delivered in 1 MHz bursts and naturally synchronized with free-electron laser X-ray pulses. Combination of these pulses, along with the auxiliary NIR and VIS ultrashort lasers, supports a plethora of dynamic investigations in physics, material science and biology. The unique features of the FLASH THz pulses and the accelerator source, however, bring along a set of challenges in the diagnostics of their key parameters: pulse energy, spectral, temporal and spatial profiles. Here, these challenges are discussed and the pulse diagnostic tools developed at FLASH are presented. In particular, a radiometric power measurement is presented that enables the derivation of the average pulse energy within a pulse burst across the spectral range, jitter-corrected electro-optical sampling for the full spectro-temporal pulse characterization, spatial beam profiling along the beam transport line and at the sample, and a lamellar grating based Fourier transform infrared spectrometer for the on-line assessment of the average THz pulse spectra. Corresponding measurement results provide a comprehensive insight into the THz beamline capabilities

High repetition rate THz characterization at 4th generation X-Ray light sources

Within this work a wholesome approach to the characterization of FEL based THz radiationis made on the example of the THz radiation provided at the THz beamline at Flash thefree electron laser at DESY in Hamburg. A SRW based model of the THz generation froma free electron and the corresponding transport is developed and used to gain insight intothe complex intensity profile created by the interplay of the THz undulator and variousmagnetic edges. An accurate model of the THz beamline is established that allows theprecise manipulation of beam size and divergence for subsequent experiments. Based on theagreement with measurements a complete beam transport model for the helical THz undulator,planned at Flash2 is developed. Furthermore a THz pulse characterization systemfor high pulse energy high spectral brightness and high pulse energy high bandwidth THzpulses from a free electron laser is developed, set up and thoroughly tested. Based on thelinear electro-optical effect the system achieves a broad detection range at few femtosecondtime resolution by the interplay of two electro-optical detection setups. The first realizingbroadband detection in a scanning electro-optical sampling fashion and the second allowingfor a single shot arrival time correction tackling the problem of synchronizing external lightsources to large scale accelerators. The system permits the characterization of the electricfield of the THz pulses available at the THz beamline at FLASH at a repetition rate of200 kHz. With the photon efficient design and easy scale-ability the system is suited as ablueprint for other high repetition rate accelerators implementing FEL based THz sources.Lastly the experimental capabilities of the developed system are proven by a model experimentutilizing Strontiumtitanate, perovskite type transition metal oxide. Indications of anultrafast phase change are found and a possibly mechanism is proposed and discussed basedon a series of experiments under varying excitation parameters

Comparison of different technologies for the decipherment of the whole genome sequence of Campylobacter jejuni BfR-CA-14430

Background Campylobacter jejuni is a zoonotic pathogen that infects the human gut through the food chain mainly by consumption of undercooked chicken meat, raw chicken cross-contaminated ready-to-eat food or by raw milk. In the last decades, C. jejuni has increasingly become the most common bacterial cause for food-born infections in high income countries, costing public health systems billions of euros each year. Currently, different whole genome sequencing techniques such as short-read bridge amplification and long-read single molecule real-time sequencing techniques are applied for in-depth analysis of bacterial species, in particular, Illumina MiSeq, PacBio and MinION. Results In this study, we analyzed a recently isolated C. jejuni strain from chicken meat by short- and long-read data from Illumina, PacBio and MinION sequencing technologies. For comparability, this strain is used in the German PAC-CAMPY research consortium in several studies, including phenotypic analysis of biofilm formation, natural transformation and in vivo colonization models. The complete assembled genome sequence most likely consists of a chromosome of 1,645,980 bp covering 1665 coding sequences as well as a plasmid sequence with 41,772 bp that encodes for 46 genes. Multilocus sequence typing revealed that the strain belongs to the clonal complex CC-21 (ST-44) which is known to be involved in C. jejuni human infections, including outbreaks. Furthermore, we discovered resistance determinants and a point mutation in the DNA gyrase (gyrA) that render the bacterium resistant against ampicillin, tetracycline and (fluoro-)quinolones. Conclusion The comparison of Illumina MiSeq, PacBio and MinION sequencing and analyses with different assembly tools enabled us to reconstruct a complete chromosome as well as a circular plasmid sequence of the C. jejuni strain BfR-CA-14430. Illumina short-read sequencing in combination with either PacBio or MinION can substantially improve the quality of the complete chromosome and epichromosomal elements on the level of mismatches and insertions/deletions, depending on the assembly program used.Peer Reviewe

Whole genome sequencing reveals extended natural transformation in Campylobacter impacting diagnostics and the pathogens adaptive potential

Campylobacter is the major bacterial agent of human gastroenteritis worldwide and represents a crucial global public health burden. Species differentiation of C. jejuni and C. coli and phylogenetic analysis is challenged by inter-species horizontal gene transfer. Routine real-time PCR on more than 4000 C. jejuni and C. coli field strains identified isolates with ambiguous PCR results for species differentiation, in particular, from the isolation source eggs. K-mer analysis of whole genome sequencing data indicated the presence of C. coli hybrid strains with huge amounts of C. jejuni introgression. Recombination events were distributed over the whole chromosome. MLST typing was impaired, since C. jejuni sequences were also found in six of the seven housekeeping genes. cgMLST suggested that the strains were phylogenetically unrelated. Intriguingly, the strains shared a stress response set of C. jejuni variant genes, with proposed roles in oxidative, osmotic and general stress defence, chromosome maintenance and repair, membrane transport, cell wall and capsular biosynthesis and chemotaxis. The results have practical impact on routine typing and on the understanding of the functional adaption to harsh environments, enabling successful spreading and persistence of Campylobacter.Peer Reviewe

THz pulse doubler at FLASH: double pulses for pump–probe experiments at X-ray FELs

FLASH, the X-ray free-electron laser in Hamburg, Germany, employs anarrowband high-field accelerator THz source for unique THz pump X-rayprobe experiments. However, the large difference in optical paths of the THzand X-ray beamlines prevents utilization of the machine’s full potential (e.g.extreme pulse energies in the soft X-ray range). To solve this issue, lasing ofdouble electron bunches, separated by 28 periods of the driving radiofrequency(at 1.3 GHz), timed for the temporal overlap of THz and X-ray pulses at theexperimental station has been employed. In order to optimize conditions for atypical THz pump X-ray probe experiment, X-ray lasing of the first bunch toone-sixth of that of the second has been suppressed. Finally, synchronization ofTHz radiation pulses was measured to be $\approx 20$ fs (r.m.s.), and a solution formonitoring the arrival time for achieving higher temporal resolution ispresented

Optical properties of Li-based nonlinear crystals for high power mid-IR OPCPA pumped at 1 µm under realistic operational conditions

Optical properties of mid-infrared, Li-based nonlinear crystals (NLC) are estimated under realistic experimental conditions for high power lasers using the thermal imaging method. The study focuses on crystals with relatively large apertures for high energy and power applications that are transparent in a broad spectral range (6–16 µm). For this purpose, a high average power Yb:YAG laser amplifier system was used that pumps the crystals and the thermal response of the materials was recorded. An estimate of the linear and nonlinear absorption coefficients of different non-oxide crystals at the 1-µm pump wavelength along with their nonlinear refractive index is provided. To the best of our knowledge, linear and nonlinear absorption coefficients are presented for the first time, including the nonlinear refractive index of AGS, LGSe, LIS, and LISe. These optical material properties are of utmost importance for cutting-edge laser developments close to damage thresholds since they affect the resulting beam quality and conversion efficiencies of novel high power optical parametric amplifiers operating in the long-wavelength mid-infrared spectral range

Mapping ultrafast ionization of atoms and clusters with terahertz-streaking delay

We apply THz-field streaking to temporally resolve the ultrafast ionization of neutral cluster vs atomic targets exposed to intense ultrashort soft x-ray pulses from a free-electron laser (FEL). In the experiment pristine Xe and mixed Xe/Ar clusters as well as Xe atoms are ionized in the vicinity of the $4d→ɛf$ giant resonance of Xe. We compare the relative streaking delay between the center-of-mass oscillations of electrons that have final kinetic energies in the spectral region of the Xe($4d$) photoline. Our results show that clusters are ionized at the beginning of the 100 fs FEL pulse as supported by calculations of target frustration in the focal volume. We have identified a significantly larger 40 fs relative streaking delay between mixed Xe-Ar clusters vs Xe atoms compared to a 15 fs relative delay found for pristine Xe clusters. This is attributed to the high sensitivity of our spectroscopic measurement to the degree of condensation of the cluster target. Our results show that THz streaking is a powerful technique to temporally study electron emission from extended targets under intense FEL radiation on time scales that are significantly shorter than the FEL pulse duration

Correlated electronic decay in expanding clusters triggered by intense XUV pulses from a Free-Electron-Laser

Irradiation of nanoscale clusters and large molecules with intense laser pulses transforms them into highly-excited non- equilibrium states. The dynamics of intense laser-cluster interaction is encoded in electron kinetic energy spectra, which contain signatures of direct photoelectron emission as well as emission of thermalized nanoplasma electrons. In this work we report on a so far not observed spectrally narrow bound state signature in the electron kinetic energy spectra from mixed Xe core - Ar shell clusters ionized by intense extreme-ultraviolet (XUV) pulses from a free-electron-laser. This signature is attributed to the correlated electronic decay (CED) process, in which an excited atom relaxes and the excess energy is used to ionize the same or another excited atom or a nanoplasma electron. By applying the terahertz field streaking principle we demonstrate that CED-electrons are emitted at least a few picoseconds after the ionizing XUV pulse has ended. Following the recent finding of CED in clusters ionized by intense near-infrared laser pulses, our observation of CED in the XUV range suggests that this process is of general relevance for the relaxation dynamics in laser produced nanoplasmas

Investigating Coherent Magnetization Control with Ultrashort THz Pulses

International audienceCoherent terahertz control of magnetization dynamics is an area of current interest due to its great potential for the realization of magnetization control on ultrafast timescales in commercial devices. Here we report on an experiment realized at the THz beamline of the free electron laser FLASH at DESY which offers a tunable terahertz radiation source and spontaneously synchronized free-electron laser X-ray pulses to resonantly probe the magnetization state of a ferromagnetic film. In this proof-of-principle experiment, we have excited a thin Permalloy film at different THz wavelengths and recorded the induced magnetization dynamics with photons resonantly tuned to the Ni M2,3 absorption edge. For THz pump pulses including higher orders of the undulator source we observed demagnetization dynamics, which precise shape depended on the employed fundamental wavelength of the undulator source. Analyzing the shape in detail, we can reconstruct the temporal profile of the electric field of the THz pump pulse. This offers a new method for the realization of an in-situ terahertz beamline diagnostic which will help researchers to adjust the pulse characteristics as needed, for example, for future studies of THz induced coherent control of magnetization dynamics