More Like this

1. Plant science corpus

   https://doi.org/10.5281/zenodo.10022686  

   Shiu, Shin-Han (January 2023, Zenodo)

   The plant science corpus consists of the titles and abstracts of plant science articles in PubMed published prior to 2021 with a small number of 2021 records due to modification of records. The columns are: Index: integer index serving as identifier PMID: PubMed identifier Date: Publication date Journal: journal where the article was published Title: Title of the article Abstract: Abstract of the article Corpus: Title and abstract combined Text classification score: plant science record prediction model score Preprocessed corpus: Corpus after lower-casing, stop word removal, removal of non-alphanumeric and non-white space characters, lemmitisation Topic: index of topics after topic modeling 

   more » « less
2. Rapid plant-to-plant systemic signaling via a Cuscuta bridge

   https://doi.org/10.1093/plphys/kiae339  

   Fichman, Yosef; Peláez-Vico, María Ángeles; Mudalige, Asha Kaluwella; Lee, Hyun-Oh; Mittler, Ron; Park, So-Yon (June 2024, Plant Physiology)

   Two plants connected via a Cuscuta bridge exchange rapid systemic calcium, electric, and reactive oxygen species signals, suggesting that Cuscuta may have beneficial effects to host plants. 

   more » « less
3. Agrobacterium ‐mediated Cuscuta campestris transformation as a tool for understanding plant–plant interactions

   https://doi.org/10.1111/nph.20140  

   Adhikari, Supral; Mudalige, Asha; Phillips, Lydia; Lee, Hyeyoung; Bernal‐Galeano, Vivian; Gruszewski, Hope; Westwood, James_H; Park, So‐Yon (October 2024, New Phytologist)

   Summary Cuscuta campestris, a stem parasitic plant, has served as a valuable model plant for the exploration of plant–plant interactions and molecular trafficking. However, a major barrier toC. campestrisresearch is that a method to generate stable transgenic plants has not yet been developed.Here, we describe the development of aCuscutatransformation protocol using various reporter genes (GFP, GUS, or RUBY) and morphogenic genes (CcWUS2andCcGRF/GIF), leading to a robust protocol forAgrobacterium‐mediatedC. campestristransformation.The stably transformed and regenerated RUBYC. campestrisplants produced haustoria, the signature organ of parasitic plants, and these were functional in forming host attachments. The locations of T‐DNA integration in the parasite genome were confirmed through TAIL‐PCR. TransformedC. campestrisalso produced flowers and viable transgenic seeds exhibiting betalain pigment, providing proof of germline transmission of the RUBY transgene. Furthermore, RUBY is not only a useful selectable marker for theAgrobacterium‐mediated transformation, but may also provide insight into the movement of molecules fromC. campestristo the host during parasitism.Thus, the protocol for transformation ofC. campestrisreported here overcomes a major obstacle toCuscutaresearch and opens new possibilities for studying parasitic plants and their interactions with hosts. 

   more » « less
4. cis -Regulatory Elements in Plant Development, Adaptation, and Evolution

   https://doi.org/10.1146/annurev-arplant-070122-030236  

   Marand, Alexandre P.; Eveland, Andrea L.; Kaufmann, Kerstin; Springer, Nathan M. (May 2023, Annual Review of Plant Biology)

   cis-Regulatory elements encode the genomic blueprints that ensure the proper spatiotemporal patterning of gene expression necessary for appropriate development and responses to the environment. Accumulating evidence implicates changes to gene expression as a major source of phenotypic novelty in eukaryotes, including acute phenotypes such as disease and cancer in mammals. Moreover, genetic and epigenetic variation affecting cis-regulatory sequences over longer evolutionary timescales has become a recurring theme in studies of morphological divergence and local adaptation. Here, we discuss the functions of and methods used to identify various classes of cis-regulatory elements, as well as their role in plant development and response to the environment. We highlight opportunities to exploit cis-regulatory variants underlying plant development and environmental responses for crop improvement efforts. Although a comprehensive understanding of cis-regulatory mechanisms in plants has lagged behind that in animals, we showcase several breakthrough findings that have profoundly influenced plant biology and shaped the overall understanding of transcriptional regulation in eukaryotes. 

   more » « less
5. Plant-on-chip: Core morphogenesis processes in the tiny plant Wolffia australiana

   https://doi.org/10.1093/pnasnexus/pgad141  

   Li, Feng; Yang, Jing-Jing; Sun, Zong-Yi; Wang, Lei; Qi, Le-Yao; A, Sina; Liu, Yi-Qun; Zhang, Hong-Mei; Dang, Lei-Fan; Wang, Shu-Jing; et al (April 2023, PNAS Nexus)

   Abstract A plant can be thought of as a colony comprising numerous growth buds, each developing to its own rhythm. Such lack of synchrony impedes efforts to describe core principles of plant morphogenesis, dissect the underlying mechanisms, and identify regulators. Here, we use the minimalist known angiosperm to overcome this challenge and provide a model system for plant morphogenesis. We present a detailed morphological description of the monocot Wolffia australiana, as well as high-quality genome information. Further, we developed the plant-on-chip culture system and demonstrate the application of advanced technologies such as single-nucleus RNA-sequencing, protein structure prediction, and gene editing. We provide proof-of-concept examples that illustrate how W. australiana can decipher the core regulatory mechanisms of plant morphogenesis. 

   more » « less