Embodiments of the present invention are directed to lightweight, portable spectrograph systems configured for applications in high-throughput crop phenotyping and plant health assessment, and associated methods.

Sensing of gas species characteristics within a process chamber includes selectively projecting a beam of a first select lasing frequency therethough. The beam is optically coupled to a detector to detect a process transmission spectrum having an absorption dip at a select lasing frequency caused by a gas species characteristic. The beam is selectively projected through a fiber Bragg grating which is formed in an optical fiber core to partially reflect at least a portion of the beam of the first select lasing frequency while passing a remainder of the beam. The remainder of the beam has an FBG transmission spectrum mimicking the absorption dip at or near the select lasing frequency caused by a gas species characteristic of interest. It is optically coupled the detector. Outputs of the detector are monitored to compare the FBG transmission spectrum to any process transmission spectrum produced in the process chamber.

An apparatus for imaging a includes an light source for illuminating the sample simultaneously in a line focus or an array of foci; and a sensor for detecting photons emitted or scattered from the sample simultaneously in an array of fields of view. An array of sub-observation volumes in the sample, from which photons are emitted or scattered during imaging, is defined by the volumes in space where the line focus or array of foci from the light source overlap with the corresponding array of field of views of the sensor. A cylindrical sample holder holds the sample at a surface and is rotatably arranged such that at least a portion of the sample can be transported through at least one of the sub-observation volumes by rotating the sample holder. The apparatus can be used in a high-throughput method of imaging.

Provided are an image reconstruction method, a device and a microscopic imaging device. The method includes calculating a gray value at each fiber center in a fiber bundle (04) in a reconstructed image according to a gray value at a center position of each fiber, determined in one or more sample images; performing a spatial interpolation using the gray value at the fiber center to obtain gray values of other pixel points in the fiber bundle (04) in the reconstructed image, so as to form the reconstructed image. This image reconstruction method greatly accelerates the speed of image reconstruction, and is helpful to remove the grating (022) and fiber bundle (04) cellular grid residues in the reconstructed image and improve the imaging quality of the reconstructed image.

An apparatus for analyzing optical properties of a sample includes a housing to receive a light source and a detector; a sample locus defined relative to the housing and positioned such that when a light source and a detector are in predetermined positions, the sample locus is subject to illumination by the light source and the detector is positioned to receive and detect light from the sample; a cover on the housing, the cover being movable in a hinged manner between an open position and a closed position; and a sample-receiving surface for receiving a free-standing sample in liquid or semi-solid form. When the cover is moved to the closed position it encloses the sample locus, with the sample-receiving surface being tilted away from the horizontal during the closing movement and the sample being retained thereon by surface tension or adhesion and brought to the sample locus in an enclosed environment.

A spectrometer system and method including a laser source for directing a laser beam to a sample producing plasma radiation on the sample. At least one fiber of a fiber bundle is connected to an illumination source for directing light to the sample. A spectrometer subsystem receives plasma radiation from the sample via the detection fiber bundle. A camera receives light from the illumination source reflected off the sample for detecting the presence of the sample.

One aspect relates to a bioreactor and/or mixing container that includes an outer wall and a spectroscopy cell arranged in and/or on the outer wall. The spectroscopy cell includes a first optical area and a second optical area arranged opposite the first optical area. The first optical area and the second optical area can be set at at least two different distances from one another. A specimen-receiving area is located between the first optical area and the second optical area.

A spectrometer system and method including a laser source for directing a laser beam to a sample producing plasma radiation on the sample. At least one fiber of a fiber bundle is connected to an illumination source for directing light to the sample. A spectrometer subsystem receives plasma radiation from the sample via the detection fiber bundle and receives light from the illumination source reflected off the sample also via the detection fiber bundle for detecting the presence of the sample.

A system including a light source, sampling tray, and a plurality of fiber optics positioned to achieve high contrast to improve accuracy and eliminate the need to rotate the sample. A composite light image from the fiber optics is fed to a spectrometer which converts the reflected light into a fingerprint corresponding to the concentration of at least one substance in the sample. The fingerprint is processed by a statistical model to determine concentration level of the at least one substance in the sample and the concentration level is then displayed.

An apparatus and method for an alignment cell are described herein. One apparatus includes a delivery fiber and a delivery lens coupled to an optical bench, a mirror to receive light from the delivery fiber through the delivery lens, wherein the received light is directed by the mirror to an ion trap on the trap surface, and a collection fiber coupled to the optical bench to receive light fluoresced from an ion in the ion trap.