Salicylic acid (SA) is the phytohormone required for plant defense against pathogens. Pathogen infection induces SA accumulation in both infested and systemic tissue. Blocking SA accumulation results in the compromised plant immunity, whereas the exogenous application of SA or the SA analogs induces immunity to pathogens. In Arabidopsis, pathogen-induced SA is majorly synthesized through Isochorismate Synthase 1(ICS1/SID2). SARD1 and CBP60g promote pathogen-induced SA synthesis by controlling the expression of ICS1. In addition to ICS1, SARD1 and CBP60g also maintain the expression of a large number of the other immune regulators, suggesting that these two transcription factors play broad roles in the plant immunity.
Arabidopsis NPR1 is required for the SA-induced PR gene expression and resistance against pathogens. NPR1 comprises an N-terminal BTB/POZ domain, a central ankyrin-repeat domain and the C-terminal transactivation domain. NPR3 andNPR4 are two paralogs of NPR1 with the very similar domain structures as NPR1
Salicylic acid (SA) is the phytohormone required for plant defense against pathogens. Pathogen infection induces SA accumulation in both infested and systemic tissue. Blocking SA accumulation results in the compromised plant immunity, whereas the exogenous application of SA or the SA analogs induces immunity to pathogens. In Arabidopsis, pathogen-induced SA is majorly synthesized through Isochorismate Synthase 1(ICS1/SID2). SARD1 and CBP60g promote pathogen-induced SA synthesis by controlling the expression of ICS1. In addition to ICS1, SARD1 and CBP60g also maintain the expression of a large number of the other immune regulators, suggesting that these two transcription factors play broad roles in the plant immunity.
Arabidopsis NPR1 is required for the SA-induced PR gene expression and resistance against pathogens. NPR1 comprises an N-terminal BTB/POZ domain, a central ankyrin-repeat domain and the C-terminal transactivation domain. NPR3 andNPR4 are two paralogs of NPR1 with the very similar domain structures as NPR1
Multigene cloning approach for crop improvement
This technology has been widely adopted by the life science research community especially for applications that require the transfer of thousands of DNA fragments into one type of plasmid. It provides a promising platform for developing gene stacking technologies for crops by which we can integrate many genes of interest simultaneously for crop improvement programs.Site-specific recombinases are the enzymes used for gateway cloning.They fall into one of the two specific families, namely Tyrosine and Serine family. The former includes Cre , FLP and R which bind to identical recombinase binding sites lox, FRT, and RS, respectively. The later includes phiC31 Integrase and phiC31 excisionase (Thorpe and Smith, 1998), which binds to non-identical sites attB/attP and attL/attR, respectively.
Endocytosis and Endosome Trafficking: Roles in Coronavirus Uptake and Cell Si...InsideScientific
To learn more and watch the webinar, visit:
https://insidescientific.com/webinar/endocytosis-endosome-trafficking-coronavirus-uptake-cell-signaling-aps
Endocytosis and Endosome Trafficking: Roles in Coronavirus Uptake and Cell Signaling
Click to share on Twitter (Opens in new window)Click to share on LinkedIn (Opens in new window)Click to share on Facebook (Opens in new window)Click to share on Email (Opens in new window)
ON DEMAND
Ole Petersen, Roop Mallik and Erwin Neher share late-breaking research looking at endocytosis and calcium signaling in the context of SARS-CoV-2, organelle transport and calcium imaging. This webinar is brought to you by APS’ new journal, Function, and part of their Physiology in Focus learning series.
REGISTER
During this exclusive live webinar, Ole Petersen, Roop Mallik and Erwin Neher discuss how the COVID-19 virus uses receptor-mediated endocytosis to gain entry into host cells, how motor proteins guide endosomes and phagosomes from the cell surface to lysosomes, and how intracellular calcium buffering can be used to modulate cell signaling and calcium imaging.
Endocytic Uptake of SARS-CoV-2: The Critical Roles of pH, Ca2+ and NAADP
Ole Petersen, CBE, FRS
Very recent work shows that SARS-CoV-2 enters our cells through receptor-mediated endocytosis, dependent on an endosomal bafilomycin-sensitive proton pump as well as two-pore channels (TPCs). Physiological intracellular Ca2+ signals, mediated by the messenger nicotinic acid adenine dinucleotide phosphate (NAADP), depend on the very same proton pump and TPCs. Two hitherto completely separate research fields, namely molecular virology and cellular Ca2+ signaling physiology are now coming together, creating exciting new research opportunities.
Trafficking of Endosomes and Phagosomes: Geometry, Force and Cholesterol
Roop Mallik, PhD
Uptake of material from the external world by endocytosis/phagocytosis supplies nutrients to cells, and is also critical for cell signaling. The journey of endosomes/phagosomes begins at the cell periphery and ends at lysosomes near the cell center. I will discuss how the balance of forces generated by antagonistic motor proteins guides this journey, and how lipids are emerging as a master-controller of this balance.
Calcium Buffering in Endo- and Exocytosis Studies
Erwin Neher, FRS
Researchers use calcium-chelators (buffers) to manipulate levels of free intracellular calcium concentration ([Ca2+]i) and to shape Calcium signals. Unlike pH buffers, which are used to strictly control pH levels, calcium buffers inside a living cell may not influence the steady-state level of [Ca2+]i at all, but rather slow-down [Ca2+]i-changes induced either endogenously or by the experimenter. Such properties and their consequences on Ca2+-imaging will be discussed.
Carotenoids, also called tetraterpenoids, are organic pigments that are produced by plants and algae, as well as several bacteria and fungi. Carotenoids can be produced from fats and other basic organic metabolic building blocks by all these organisms.
Multigene cloning approach for crop improvement
This technology has been widely adopted by the life science research community especially for applications that require the transfer of thousands of DNA fragments into one type of plasmid. It provides a promising platform for developing gene stacking technologies for crops by which we can integrate many genes of interest simultaneously for crop improvement programs.Site-specific recombinases are the enzymes used for gateway cloning.They fall into one of the two specific families, namely Tyrosine and Serine family. The former includes Cre , FLP and R which bind to identical recombinase binding sites lox, FRT, and RS, respectively. The later includes phiC31 Integrase and phiC31 excisionase (Thorpe and Smith, 1998), which binds to non-identical sites attB/attP and attL/attR, respectively.
Endocytosis and Endosome Trafficking: Roles in Coronavirus Uptake and Cell Si...InsideScientific
To learn more and watch the webinar, visit:
https://insidescientific.com/webinar/endocytosis-endosome-trafficking-coronavirus-uptake-cell-signaling-aps
Endocytosis and Endosome Trafficking: Roles in Coronavirus Uptake and Cell Signaling
Click to share on Twitter (Opens in new window)Click to share on LinkedIn (Opens in new window)Click to share on Facebook (Opens in new window)Click to share on Email (Opens in new window)
ON DEMAND
Ole Petersen, Roop Mallik and Erwin Neher share late-breaking research looking at endocytosis and calcium signaling in the context of SARS-CoV-2, organelle transport and calcium imaging. This webinar is brought to you by APS’ new journal, Function, and part of their Physiology in Focus learning series.
REGISTER
During this exclusive live webinar, Ole Petersen, Roop Mallik and Erwin Neher discuss how the COVID-19 virus uses receptor-mediated endocytosis to gain entry into host cells, how motor proteins guide endosomes and phagosomes from the cell surface to lysosomes, and how intracellular calcium buffering can be used to modulate cell signaling and calcium imaging.
Endocytic Uptake of SARS-CoV-2: The Critical Roles of pH, Ca2+ and NAADP
Ole Petersen, CBE, FRS
Very recent work shows that SARS-CoV-2 enters our cells through receptor-mediated endocytosis, dependent on an endosomal bafilomycin-sensitive proton pump as well as two-pore channels (TPCs). Physiological intracellular Ca2+ signals, mediated by the messenger nicotinic acid adenine dinucleotide phosphate (NAADP), depend on the very same proton pump and TPCs. Two hitherto completely separate research fields, namely molecular virology and cellular Ca2+ signaling physiology are now coming together, creating exciting new research opportunities.
Trafficking of Endosomes and Phagosomes: Geometry, Force and Cholesterol
Roop Mallik, PhD
Uptake of material from the external world by endocytosis/phagocytosis supplies nutrients to cells, and is also critical for cell signaling. The journey of endosomes/phagosomes begins at the cell periphery and ends at lysosomes near the cell center. I will discuss how the balance of forces generated by antagonistic motor proteins guides this journey, and how lipids are emerging as a master-controller of this balance.
Calcium Buffering in Endo- and Exocytosis Studies
Erwin Neher, FRS
Researchers use calcium-chelators (buffers) to manipulate levels of free intracellular calcium concentration ([Ca2+]i) and to shape Calcium signals. Unlike pH buffers, which are used to strictly control pH levels, calcium buffers inside a living cell may not influence the steady-state level of [Ca2+]i at all, but rather slow-down [Ca2+]i-changes induced either endogenously or by the experimenter. Such properties and their consequences on Ca2+-imaging will be discussed.
Carotenoids, also called tetraterpenoids, are organic pigments that are produced by plants and algae, as well as several bacteria and fungi. Carotenoids can be produced from fats and other basic organic metabolic building blocks by all these organisms.
What is greenhouse gasses and how many gasses are there to affect the Earth.moosaasad1975
What are greenhouse gasses how they affect the earth and its environment what is the future of the environment and earth how the weather and the climate effects.
Deep Behavioral Phenotyping in Systems Neuroscience for Functional Atlasing a...Ana Luísa Pinho
Functional Magnetic Resonance Imaging (fMRI) provides means to characterize brain activations in response to behavior. However, cognitive neuroscience has been limited to group-level effects referring to the performance of specific tasks. To obtain the functional profile of elementary cognitive mechanisms, the combination of brain responses to many tasks is required. Yet, to date, both structural atlases and parcellation-based activations do not fully account for cognitive function and still present several limitations. Further, they do not adapt overall to individual characteristics. In this talk, I will give an account of deep-behavioral phenotyping strategies, namely data-driven methods in large task-fMRI datasets, to optimize functional brain-data collection and improve inference of effects-of-interest related to mental processes. Key to this approach is the employment of fast multi-functional paradigms rich on features that can be well parametrized and, consequently, facilitate the creation of psycho-physiological constructs to be modelled with imaging data. Particular emphasis will be given to music stimuli when studying high-order cognitive mechanisms, due to their ecological nature and quality to enable complex behavior compounded by discrete entities. I will also discuss how deep-behavioral phenotyping and individualized models applied to neuroimaging data can better account for the subject-specific organization of domain-general cognitive systems in the human brain. Finally, the accumulation of functional brain signatures brings the possibility to clarify relationships among tasks and create a univocal link between brain systems and mental functions through: (1) the development of ontologies proposing an organization of cognitive processes; and (2) brain-network taxonomies describing functional specialization. To this end, tools to improve commensurability in cognitive science are necessary, such as public repositories, ontology-based platforms and automated meta-analysis tools. I will thus discuss some brain-atlasing resources currently under development, and their applicability in cognitive as well as clinical neuroscience.
Seminar of U.V. Spectroscopy by SAMIR PANDASAMIR PANDA
Spectroscopy is a branch of science dealing the study of interaction of electromagnetic radiation with matter.
Ultraviolet-visible spectroscopy refers to absorption spectroscopy or reflect spectroscopy in the UV-VIS spectral region.
Ultraviolet-visible spectroscopy is an analytical method that can measure the amount of light received by the analyte.
Richard's aventures in two entangled wonderlandsRichard Gill
Since the loophole-free Bell experiments of 2020 and the Nobel prizes in physics of 2022, critics of Bell's work have retreated to the fortress of super-determinism. Now, super-determinism is a derogatory word - it just means "determinism". Palmer, Hance and Hossenfelder argue that quantum mechanics and determinism are not incompatible, using a sophisticated mathematical construction based on a subtle thinning of allowed states and measurements in quantum mechanics, such that what is left appears to make Bell's argument fail, without altering the empirical predictions of quantum mechanics. I think however that it is a smoke screen, and the slogan "lost in math" comes to my mind. I will discuss some other recent disproofs of Bell's theorem using the language of causality based on causal graphs. Causal thinking is also central to law and justice. I will mention surprising connections to my work on serial killer nurse cases, in particular the Dutch case of Lucia de Berk and the current UK case of Lucy Letby.
Slide 1: Title Slide
Extrachromosomal Inheritance
Slide 2: Introduction to Extrachromosomal Inheritance
Definition: Extrachromosomal inheritance refers to the transmission of genetic material that is not found within the nucleus.
Key Components: Involves genes located in mitochondria, chloroplasts, and plasmids.
Slide 3: Mitochondrial Inheritance
Mitochondria: Organelles responsible for energy production.
Mitochondrial DNA (mtDNA): Circular DNA molecule found in mitochondria.
Inheritance Pattern: Maternally inherited, meaning it is passed from mothers to all their offspring.
Diseases: Examples include Leber’s hereditary optic neuropathy (LHON) and mitochondrial myopathy.
Slide 4: Chloroplast Inheritance
Chloroplasts: Organelles responsible for photosynthesis in plants.
Chloroplast DNA (cpDNA): Circular DNA molecule found in chloroplasts.
Inheritance Pattern: Often maternally inherited in most plants, but can vary in some species.
Examples: Variegation in plants, where leaf color patterns are determined by chloroplast DNA.
Slide 5: Plasmid Inheritance
Plasmids: Small, circular DNA molecules found in bacteria and some eukaryotes.
Features: Can carry antibiotic resistance genes and can be transferred between cells through processes like conjugation.
Significance: Important in biotechnology for gene cloning and genetic engineering.
Slide 6: Mechanisms of Extrachromosomal Inheritance
Non-Mendelian Patterns: Do not follow Mendel’s laws of inheritance.
Cytoplasmic Segregation: During cell division, organelles like mitochondria and chloroplasts are randomly distributed to daughter cells.
Heteroplasmy: Presence of more than one type of organellar genome within a cell, leading to variation in expression.
Slide 7: Examples of Extrachromosomal Inheritance
Four O’clock Plant (Mirabilis jalapa): Shows variegated leaves due to different cpDNA in leaf cells.
Petite Mutants in Yeast: Result from mutations in mitochondrial DNA affecting respiration.
Slide 8: Importance of Extrachromosomal Inheritance
Evolution: Provides insight into the evolution of eukaryotic cells.
Medicine: Understanding mitochondrial inheritance helps in diagnosing and treating mitochondrial diseases.
Agriculture: Chloroplast inheritance can be used in plant breeding and genetic modification.
Slide 9: Recent Research and Advances
Gene Editing: Techniques like CRISPR-Cas9 are being used to edit mitochondrial and chloroplast DNA.
Therapies: Development of mitochondrial replacement therapy (MRT) for preventing mitochondrial diseases.
Slide 10: Conclusion
Summary: Extrachromosomal inheritance involves the transmission of genetic material outside the nucleus and plays a crucial role in genetics, medicine, and biotechnology.
Future Directions: Continued research and technological advancements hold promise for new treatments and applications.
Slide 11: Questions and Discussion
Invite Audience: Open the floor for any questions or further discussion on the topic.
This presentation explores a brief idea about the structural and functional attributes of nucleotides, the structure and function of genetic materials along with the impact of UV rays and pH upon them.
The ability to recreate computational results with minimal effort and actionable metrics provides a solid foundation for scientific research and software development. When people can replicate an analysis at the touch of a button using open-source software, open data, and methods to assess and compare proposals, it significantly eases verification of results, engagement with a diverse range of contributors, and progress. However, we have yet to fully achieve this; there are still many sociotechnical frictions.
Inspired by David Donoho's vision, this talk aims to revisit the three crucial pillars of frictionless reproducibility (data sharing, code sharing, and competitive challenges) with the perspective of deep software variability.
Our observation is that multiple layers — hardware, operating systems, third-party libraries, software versions, input data, compile-time options, and parameters — are subject to variability that exacerbates frictions but is also essential for achieving robust, generalizable results and fostering innovation. I will first review the literature, providing evidence of how the complex variability interactions across these layers affect qualitative and quantitative software properties, thereby complicating the reproduction and replication of scientific studies in various fields.
I will then present some software engineering and AI techniques that can support the strategic exploration of variability spaces. These include the use of abstractions and models (e.g., feature models), sampling strategies (e.g., uniform, random), cost-effective measurements (e.g., incremental build of software configurations), and dimensionality reduction methods (e.g., transfer learning, feature selection, software debloating).
I will finally argue that deep variability is both the problem and solution of frictionless reproducibility, calling the software science community to develop new methods and tools to manage variability and foster reproducibility in software systems.
Exposé invité Journées Nationales du GDR GPL 2024
Deep Software Variability and Frictionless Reproducibility
Male female plant communication by ralf mediated signaling final 11
1. Male and Female Plant Communication
by Rapid Alkalinization Factor Mediated
Signaling
Ritasree Sarma
2. Dept of Plant Biotechnology UAS.GKVK 2
Do they
communicate ?
Yes..
How??
3. Fertilization process in plant
Regulatory steps involve in fertilization
Function of receptor like kinases
Rapid Alkalinisation Factor structure and function
Role of Rapid Alkalinisation Factor in pollen tube
growth
Case study
Summary
Dept of Plant Biotechnology UAS.GKVK 3
Contents
4. Dept of Plant Biotechnology UAS.GKVK 4
Reproductive parts
5. Dept of Plant Biotechnology UAS.GKVK 5
Fertilization
Presented in botanical section held in Kiew and were published as
an abstract (Nawaschin, 1898)
6. Dept of Plant Biotechnology UAS.GKVK 6
How much we understand??
Puzzled scientist in the last 20 years…
7. Dept of Plant Biotechnology UAS.GKVK 7
Fig:Images of a living ovule after the arrival of
the pollen tube (PT), 10 h after pollination
Fig: Images of a living ovule
after 15h pollination
8. Dept of Plant Biotechnology UAS.GKVK 8
Chemical attractant…concept was 150 years old
Fig: Amino acid alignment for CRPs
Fig:Expression analysis for CRPs
9. Dept of Plant Biotechnology UAS.GKVK 9
Fig: Directional growth of the pollen tube toward LURE attractant peptide
10. Dept of Plant Biotechnology UAS.GKVK 10
She is not my boss! Species specificity..
Higashiyamava et
al.,2015
12. Dept of Plant Biotechnology UAS.GKVK 12
?male or female factor
13. Dept of Plant Biotechnology UAS.GKVK 13
Fig: Expression of FER
Fig: FER for pollen tube growth control
Fig: FER structure
Fig: FER kinase activity
Fig: Species specificity of FER
15. Dept of Plant Biotechnology UAS.GKVK
15
Fig: Expression of ANXUR
Fig: Expression of ANXUR in pollen tube burst
16. Dept of Plant Biotechnology UAS.GKVK 16
P -Signaling
cascade
ANX
FER
Interaction between FER and AUXN
17. Dept of Plant Biotechnology UAS.GKVK 17
Unknown female
secreted ligand for
FER??
?
Hafidh et al., Biochemical Society Transactions.2014
Missing link in pollen tube perception
23. Dept of Plant Biotechnology UAS.GKVK
23
Haruta et al.,Science.2014
Fig: MS spectra showing abundance of FER peptide
Fig:Binding of FER to RALF
Fig:Function of FER-RALF
Function of RALF peptide
24. Dept of Plant Biotechnology UAS.GKVK
24
Fig: Phosphorylation of S899 residue ofAHA2
Fig: AHA2 protein
Fig: AHA2 protein function
25. Dept of Plant Biotechnology UAS.GKVK 25
Can we correlate with pollen
tube growth?
Fig: RALF interaction with FER and AHA2
26. •
Dept of Plant Biotechnology UAS.GKVK
26
Fig: SlPRALF expression in pollen tube Fig: SlPRALF effects on elongating pollen tubes
33. The guided growth, reception and rupture of the pollen tube are essential
for successful fertilization
FERONIA (FER),a CrRLK1L receptor expressed in the female
gametophyte, is essential for pollen tube reception
ANXUR1 and ANXUR2 (ANX1/2), expressed in the pollen tube prevent
precocious pollen tube rupture
But how they interact for pollen tube rupture is not yet answered
Objective: To find extracellular signalling molecule for male female
plant communication
Dept of Plant Biotechnology UAS.GKVK 33
Introduction
34. Dept of Plant Biotechnology UAS.GKVK 34
Materials and Methods
Plant material and growth conditions
Arabidopsis thaliana (Columbia-0) was used as the wild type
Arabidopsis were transformed using Agrobacterium-mediated floral dip method
Phylogenic analysis and transcription assay
The sequences of both CrRLK1L family and RALF family from Arabidopsis
Information Resource
Transcription profile heat-map based on RNA-seq data of different tissues
GFP assay and T-DNA induced mutants
To test the binding affinity of RALF peptides with the extracellular domains
(ECDs), Peptide synthesis and in vitro treatment on the pollen tube
All RALF peptides were synthesized by Scilight Biotechnology LLC (Beijing,
China) with a purity higher than 95%.
35. Dept of Plant Biotechnology UAS.GKVK 35
Fig: Expression pattern of CrRLKs
Fig: Expression pattern of BUPS
36. Dept of Plant Biotechnology UAS.GKVK
36
Fig: Mutant alleles of bups1 and bups2
Fig: Effect on vegetative growth
Fig:Effect on reproductive growth
37. Dept of Plant Biotechnology UAS.GKVK 37
Effect on pollen tube growth
38. Dept of Plant Biotechnology UAS.GKVK 38
Effect on pollen tube growth
39. Dept of Plant Biotechnology UAS.GKVK
39
Fig: Expression of RALF4/19
Effect of RALF 4/19 on pollen tube growth
40. Dept of Plant Biotechnology UAS.GKVK 40
BUPS1/2 and RALF4/19 as functional pair
41. Dept of Plant Biotechnology UAS.GKVK 41
BUPS interact with ANX1/2
42. Dept of Plant Biotechnology UAS.GKVK 42
Interaction of BUPS,RALF and ANX
43. Dept of Plant Biotechnology UAS.GKVK 43
How pollen tube integrity is compromised??
Fig: Expression of RALF 34
44. Dept of Plant Biotechnology UAS.GKVK
44
Role of RALF 34
45. Dept of Plant Biotechnology UAS.GKVK 45
Competitive binding of RALF 34
46. Dept of Plant Biotechnology UAS.GKVK 46
FER
RALF4/19 act
upstream of it
ANX-BUPS form
heterodimer
RALF 34 present
in synergid cell
Competitively
bind with
RALF4/19
Activate paracrine
signalling
Pollen tube burst
and sperm release
Summary
48. Dept of Plant Biotechnology UAS.GKVK
48
Just touching a small dot!!
Hafidh et al.,2016
49. Male female plant communication is a complex process
Regulation occurs at every step from pollen tube
growth to zygotic activation
RALF mediated signalling is important for both pollen
tube integrity and rupture
Yet to understand! Secretomics and interactomics
will definitely lead the way…
Dept of Plant Biotechnology UAS.GKVK 49
Conclusion