Amrita Srivathsan @asrivathsan.bsky.social
@asrivath
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Researcher at Museum fΓΌr Naturkunde Berlin. Species interactions, Nanopore, NGS barcoding, bioinformatics.
Berlin
Joined August 2011
Excited to share that our work on metabarcoding of dissolved feces from flies for vertebrate detection is a #TopDownloadedArticle in Molecular Ecology. Vertebrate detection using iDNA made simpler and cheaper
onlinelibrary.wiley.com
DNA obtained from invertebrates (iDNA) can be metabarcoded in order to survey vertebrate communities. However, little attention has been paid to the interaction between the invertebrate and vertebr...
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Halloween News: Meet a new vampire fly (Hippoboscidae) π§ββοΈπͺ° 1 of 10 species found on citizen-reported bird carcasses in Singapore: Even dead birds can have productive afterlives! See host records, annotated images, pictorial keys & DNA diagnostics here https://t.co/Mo7FD5hluv
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The top 10 flying insect clades rule the skiesβbut defy the rules. Weak or inverted latitudinal diversity gradients leave biogeographers puzzled. Entomologists?Β MildlyΒ amused. https://t.co/eOIwXVPJHo
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π« Farewell to species descriptions with consensus barcodes β¨ Hello to Diagnostic Molecular Combinations (DMCs) β
State-specific β
Contrastive β
Publication-ready Now even easier with the latest UITOTO, our updated user-friendly software; Preprint: https://t.co/Q9BbKsYVrq
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β οΈ #WorkshopUpdate 𧬠Spots still available for our #HennigMeeting2025 workshop in #HongKong ππ°this July! High-throughput Species Discovery Using Nanopore Sequencing Instructors: @asrivath, @RudolfMeier15, & Vivian Feng + Info: https://t.co/ymqNDhjTOC
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UITOTO for taxonomy. Get your molecular diagnoses right without coding or breaking a sweat! Use state-specific, contrastive DMCs instead of fuzzy consensus barcodes! πͺ°π¦πͺ±π¦π¦ππ¦ https://t.co/Q9BbKsYVrq
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π¨ EntoSieve now published in Molecular Ecology Resources: Fast and accurate size-sorting of bulk insect samples. Perfect for boosting DNA megabarcoding & metabarcoding projects. π§¬π¬ DIY low-cost device, gentle on specimens and yet efficient π¦π here:Β https://t.co/HF81XgnEJn
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Dark Taxonomy: From unknown to ready for biomonitoring in 5 steps. By describing 120 species, most species of fungus gnats routinely caught in Singaporean Malaise traps now have names. Bees, butterflies and birds, make room for your new friends. Read here: https://t.co/cmvgjo9flD
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Malaise Trap Polka Dots vs. Biodiversity Smudge: Similar latitudinal data deficiency gradients for DNA barcodes and all data. Read more in "Illuminating Entomological Dark Matter with DNA Barcodes in an Era of Insect Decline, Deep Learning, and Genomics" https://t.co/EOEQcyqSL8
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"Illuminating Entomological Dark Matter with DNA Barcodes in an Era of Insect Decline, Deep Learning, and Genomics" Who uses insect DNA barcodes for which taxa? The usual suspects dominate... Now in Annual Review of Entomology: https://t.co/EOEQcyqSL8
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β οΈ#πͺπΌπΏπΈππ΅πΌπ½ππΉπ²πΏπ𧬠#HennigMeeting2025 workshop in #HongKong next July! High-throughput Species Discovery Using Nanopore Sequencing: from Specimens to Species in a Few Days By: @RudolfMeier15, @asrivath, @vivianfeng1305 from @CIBD_mfnberlin
https://t.co/9GRefdyL3Q
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Words fail me at this point. I am completely heartbroken and devastated to hear about Zakir Bhai. Ustad Zakir Hussain was a phenomenon. He was indeed one of the most loved musicians the world saw.
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π¨ Our Familyβs Distressing Berlin Tram Experience π¨ On 21 November 2024, we boarded the M10 tram at Husemannstrasse with our two young children. As I was starting to buy tickets, the ticket controller (who boarded from the same station with us) demanded them immediately. (1/n)
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β οΈ#NewPaperAlert π¦ πππ₯π π¨π ππ‘π ππ’π―ππ«π¬π’ππ² ππ§πππ¬ππ«π’πππ: Integrative Taxonomy Reveals 32 New Species and a High Cryptic Diversity in the Scopariinae and Crambinae of the Philippines (Lepidoptera: Crambidae) By @TheoLeger1989
https://t.co/RYgbcZVwil
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Loading the result of 90 plates including probes from 8,910 specimens leading to #barcode sequences, including those from #vinesch and @CHBotschaftDE. All the work of so many scientists in a few drops - now waiting to be analysed. #biodiversity @RudolfMeier15 @mfnberlin. Exciting
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Insect levitation with ultrasound: capturing 360Β° views to automate measurements and create 3D models. More fun devices from KIT to join the DiversityScanner family π¦π¬Β https://t.co/B9pSl9n3au
@mfnberlin @leeselab @myrmoteras @Brent_C_Emerson @TokeHoye
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"Dark matter zoology": let's not stop at revealing the species diversity of dark taxa; let's also understand how they respond to global change. Two studies, two answers (flies & spiders)! πͺ°: https://t.co/kj6W9NYioU π·οΈ: https://t.co/WoEt3W5ebn
@mfnberlin @Brent_C_Emerson
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Excited to share the final chapter of my PhD thesis has been published! π Country-wide DNA metabarcoding is now a reality, thanks to key advancements. Big thanks to my co-authors and all who supported me! @leeselab @Senckenberg Link:
onlinelibrary.wiley.com
Mitigating ongoing losses of insects and their key functions (e.g. pollination) requires tracking large-scale and long-term community changes. However, doing so has been hindered by the high divers...
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π¨ EntoSieve: New automated tool for fast, accurate size-sorting of bulk insect samples! Perfect for boosting DNA megabarcoding & metabarcoding projects. π§¬π¬ DIY low-cost device, gentle on specimens and yet efficient π¦πread here: https://t.co/7TAGLYAxsj
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Published in 2009, bwa-aln is one of the oldest short-read aligners. It remains a popular choice for aligning ancient DNA reads. The following blog post explains the algorithmic reasons.
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